Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 328 of 425
Found at i:102006096 original size:18 final size:16
Alignment explanation
Indices: 102006073--102006119 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
102006063 ATATATACTT
102006073 TTTTTATATATAGTATTA
1 TTTTTATATAT--TATTA
102006091 TTTTTATATATTATTA
1 TTTTTATATATTATTA
*
102006107 TATTTAT-TATTAT
1 TTTTTATATATTAT
102006120 ACTTATTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
15 6 0.21
16 11 0.39
18 11 0.39
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (16 bp):
TTTTTATATATTATTA
Found at i:102006116 original size:12 final size:12
Alignment explanation
Indices: 102006099--102006129 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
102006089 TATTTTTATA
*
102006099 TATTATTATATT
1 TATTATTATACT
102006111 TATTATTATACT
1 TATTATTATACT
102006123 TATTATT
1 TATTATT
102006130 TTCACTATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (12 bp):
TATTATTATACT
Found at i:102006334 original size:21 final size:20
Alignment explanation
Indices: 102006310--102006368 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 20
102006300 CGTTTTTTAC
102006310 TATTATATGCA-TATATATATT
1 TATTATAT-CATTAT-TATATT
*
102006331 TATTATTATTATTATTATATT
1 TATTA-TATCATTATTATATT
*
102006352 TATTATTAACATTATTA
1 TATTA-TATCATTATTA
102006369 ATACTAGTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 27 0.82
22 6 0.18
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.58
Consensus pattern (20 bp):
TATTATATCATTATTATATT
Found at i:102006499 original size:21 final size:22
Alignment explanation
Indices: 102006473--102006525 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 22
102006463 TTCTAATATA
*
102006473 TATATATATC-GTATATGTTTT
1 TATATATATCAGTATATATTTT
*
102006494 TATATATTTCATGTATATATTTT
1 TATATATATCA-GTATATATTTT
102006517 TATAT-TATC
1 TATATATATC
102006526 CTTATTATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.33
22 3 0.11
23 15 0.56
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.58
Consensus pattern (22 bp):
TATATATATCAGTATATATTTT
Found at i:102006588 original size:23 final size:25
Alignment explanation
Indices: 102006560--102006606 Score: 80
Period size: 23 Copynumber: 2.0 Consensus size: 25
102006550 ATATGTTTAT
102006560 TATATGTATATATTT-T-TAATATA
1 TATATGTATATATTTATGTAATATA
102006583 TATATGTATATATTTATGTAATAT
1 TATATGTATATATTTATGTAATAT
102006607 TATTAATAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 15 0.68
24 1 0.05
25 6 0.27
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.55
Consensus pattern (25 bp):
TATATGTATATATTTATGTAATATA
Found at i:102006831 original size:17 final size:18
Alignment explanation
Indices: 102006809--102006855 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
102006799 TCTTACGTAC
102006809 ATATATTTTATATATA-T
1 ATATATTTTATATATACT
* *
102006826 ATATATTATGTATATACT
1 ATATATTTTATATATACT
*
102006844 AT-TACTTTATAT
1 ATATATTTTATAT
102006856 CTATTTATGT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
17 21 0.88
18 3 0.12
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.55
Consensus pattern (18 bp):
ATATATTTTATATATACT
Found at i:102007107 original size:21 final size:20
Alignment explanation
Indices: 102006974--102007118 Score: 66
Period size: 21 Copynumber: 7.0 Consensus size: 20
102006964 TACCATATGT
*
102006974 TATTATTATATTTATTTTTA
1 TATTATTATATTTATTATTA
***
102006994 CCCCTATTATATTTATTATTAA
1 -TATTATTATATTTATTATT-A
*
102007016 TATTAGTATATATT-TTATTA
1 TATTATTATAT-TTATTATTA
* *
102007036 TACGTGTA-TATATATACTTTTTA
1 TA--T-TATTATATTTA-TTATTA
* *
102007059 TATAGAGTATTATTT-TTA-TA
1 TAT-TATTA-TATTTATTATTA
*
102007079 TATCATTATATTTATTATTA
1 TATTATTATATTTATTATTA
102007099 TACTTATTAT-TTTCATTATT
1 TA-TTATTATATTT-ATTATT
102007119 GTTGCATATT
Statistics
Matches: 94, Mismatches: 17, Indels: 26
0.69 0.12 0.19
Matches are distributed among these distances:
18 5 0.05
19 6 0.06
20 15 0.16
21 44 0.47
22 11 0.12
23 13 0.14
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (20 bp):
TATTATTATATTTATTATTA
Found at i:102011030 original size:22 final size:22
Alignment explanation
Indices: 102011005--102011059 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
102010995 ATTCATGACT
*
102011005 AACATTCATTCGTCATTTATTC
1 AACATTCATTCGTCATTCATTC
**
102011027 AACATTCATTTTTCATTCATTC
1 AACATTCATTCGTCATTCATTC
*
102011049 ATTCATTCATT
1 A-ACATTCATT
102011060 GCATGTACAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 20 0.71
23 8 0.29
ACGTcount: A:0.27, C:0.22, G:0.02, T:0.49
Consensus pattern (22 bp):
AACATTCATTCGTCATTCATTC
Found at i:102011035 original size:15 final size:16
Alignment explanation
Indices: 102011017--102011058 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
102011007 CATTCATTCG
102011017 TCATTTATTCA-ACAT
1 TCATTTATTCATACAT
*
102011032 TCATTT-TTCATTCAT
1 TCATTTATTCATACAT
*
102011047 TCATTCATTCAT
1 TCATTTATTCAT
102011059 TGCATGTACA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 4 0.17
15 14 0.61
16 5 0.22
ACGTcount: A:0.26, C:0.21, G:0.00, T:0.52
Consensus pattern (16 bp):
TCATTTATTCATACAT
Found at i:102013765 original size:40 final size:40
Alignment explanation
Indices: 102013720--102013809 Score: 137
Period size: 40 Copynumber: 2.2 Consensus size: 40
102013710 CGGAATATAA
*
102013720 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-TGCACAAATGCCTTCGGGTCTTAAC
* *
102013760 CCGGATATAGCCACTTGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAAC
102013800 CCGGATATAA
1 CCGGATATAA
102013810 TTTCCAGCAT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
40 44 0.98
41 1 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAAC
Found at i:102013824 original size:40 final size:40
Alignment explanation
Indices: 102013720--102013846 Score: 130
Period size: 40 Copynumber: 3.2 Consensus size: 40
102013710 CGGAATATAA
*** *
102013720 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACCAGCACAATTGCCTTCGGGTCTTAGC
* ** *
102013760 CCGGATATAGCCACTTGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACCAGCACAATTGCCTTCGGGTCTTAGC
*** * *
102013800 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACCACCAGCACAATTGCCTTCGGGTCTTAGC
102013839 CCGGATAT
1 CCGGATAT
102013847 CATTCAATTT
Statistics
Matches: 73, Mismatches: 14, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
39 13 0.18
40 60 0.82
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (40 bp):
CCGGATATAACCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:102022653 original size:76 final size:73
Alignment explanation
Indices: 102022553--102022750 Score: 283
Period size: 76 Copynumber: 2.7 Consensus size: 73
102022543 TTGATGTTTT
* *
102022553 TTTCTGTT-TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGT
1 TTTCTGTTCGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTGAGGT
102022617 ATTTTCAA
66 ATTTTCAA
* * **
102022625 TTTCTG-TCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTG
1 TTTCTGTTC-GTC---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTG
102022689 AGGTATTTTCAA
62 AGGTATTTTCAA
*
102022701 TTTCTGTTCGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTC
1 TTTCTGTTCGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
102022751 TGGTCACATA
Statistics
Matches: 114, Mismatches: 6, Indels: 11
0.87 0.05 0.08
Matches are distributed among these distances:
71 1 0.01
72 6 0.05
73 40 0.35
76 65 0.57
77 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (73 bp):
TTTCTGTTCGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTGAGGT
ATTTTCAA
Found at i:102022991 original size:74 final size:74
Alignment explanation
Indices: 102022796--102023175 Score: 421
Period size: 74 Copynumber: 5.0 Consensus size: 74
102022786 CAATTTCTGC
* * * *
102022796 TTTTCAATTTATGTGTTTCAAAAAAATTAACTCATATTGCTAGAGGTGAGTTGAGCCTCAG--GA
1 TTTTCAATTTATGT-TTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCTCA
* *
102022859 TACGCTAAGGTAA
63 CACGCTGAGGT-A
* * *
102022872 TTTT-AATTTCTGTTCATCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTTAGC
1 TTTTCAATTTATGTT-TTC-----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGC
*
102022936 TCACACGCTAAGGTA
60 TCACACGCTGAGGTA
*
102022951 TTTCCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCC-TAGCTCACA
1 TTTTCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CCTTAGCTCACA
102023015 CGCTGAGGTA
65 CGCTGAGGTA
*
102023025 TTTTCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTTAGCTCACAC
1 TTTTCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCTCACAC
102023090 GCTGAGGTA
66 GCTGAGGTA
* * *
102023099 TTTTCAATGTATG-TTTCAAAAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAG-CTTCAGG
1 TTTTCAATTTATGTTTTC-----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-AGC
*
102023162 TCATACGCTGAGGT
60 TCACACGCTGAGGT
102023176 GAGTTGAGCC
Statistics
Matches: 269, Mismatches: 20, Indels: 28
0.85 0.06 0.09
Matches are distributed among these distances:
73 5 0.02
74 134 0.50
75 12 0.04
76 4 0.01
77 2 0.01
78 86 0.32
79 6 0.02
80 20 0.07
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (74 bp):
TTTTCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCTCACAC
GCTGAGGTA
Found at i:102023083 original size:148 final size:149
Alignment explanation
Indices: 102022800--102023160 Score: 428
Period size: 152 Copynumber: 2.4 Consensus size: 149
102022790 TTCTGCTTTT
* * * *
102022800 CAATTTATGTGTTTCAAAAAAATTAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGATACGCT
1 CAATTTATGT-TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACACGCT
*
102022865 AAGGTAATTTTAATTTCTGTTCATCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGC
64 AAGGTAATTTTAATTTATGTTCATC----AAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGC
102022930 CTTAGCTCACACGCTAAGGTATTTC
125 CTTAGCTCACACGCTAAGGTATTTC
102022955 CAATTTATGTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCCT-AGCTCACACGC
1 CAATTTATGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CCTCAG--CACACGC
* * * *
102023018 TGAGGT-ATTTTCAATTTATGTT-TTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTT
63 TAAGGTAATTTT-AATTTATGTTCATCAAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCT
* *
102023080 TAGCTCACACGCTGAGGTATTTT
127 TAGCTCACACGCTAAGGTATTTC
* * *
102023103 CAATGTATG-TTTCAAAAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCTTCAG
1 CAATTTATGTTTTC----AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
102023161 GTCATACGCT
Statistics
Matches: 182, Mismatches: 14, Indels: 23
0.83 0.06 0.11
Matches are distributed among these distances:
147 4 0.02
148 64 0.35
151 2 0.01
152 69 0.38
153 10 0.05
154 23 0.13
155 10 0.05
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.32
Consensus pattern (149 bp):
CAATTTATGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACACGCTAA
GGTAATTTTAATTTATGTTCATCAAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTTAGC
TCACACGCTAAGGTATTTC
Found at i:102023179 original size:29 final size:29
Alignment explanation
Indices: 102023146--102023203 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
102023136 TTGCGAGAGA
* *
102023146 TGAGTTGAGCTTCAGGTCATACGCTGAGG
1 TGAGTTGAGCCTCAGGTCACACGCTGAGG
*
102023175 TGAGTTGAGCCTCGGGTCACACGCTGAGG
1 TGAGTTGAGCCTCAGGTCACACGCTGAGG
102023204 ATAAAGATTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (29 bp):
TGAGTTGAGCCTCAGGTCACACGCTGAGG
Found at i:102024427 original size:76 final size:73
Alignment explanation
Indices: 102024327--102024524 Score: 310
Period size: 76 Copynumber: 2.7 Consensus size: 73
102024317 TTGATGTTTT
*
102024327 TTTCTGTT-TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGT
1 TTTCTGTTCGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGT
102024391 ATTTTCAA
66 ATTTTCAA
* *
102024399 TTTCTG-TCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTG
1 TTTCTGTTC-GTC---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTG
102024463 AGGTATTTTCAA
62 AGGTATTTTCAA
*
102024475 TTTCTGTTCGTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTC
1 TTTCTGTTCGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
102024525 GGGTCACATA
Statistics
Matches: 117, Mismatches: 3, Indels: 11
0.89 0.02 0.08
Matches are distributed among these distances:
71 1 0.01
72 6 0.05
73 40 0.34
76 68 0.58
77 2 0.02
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (73 bp):
TTTCTGTTCGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGT
ATTTTCAA
Found at i:102025567 original size:12 final size:12
Alignment explanation
Indices: 102025552--102025628 Score: 66
Period size: 12 Copynumber: 6.2 Consensus size: 12
102025542 TATTTTTACC
*
102025552 ATTTTTATTTTT
1 ATTTTTATTATT
102025564 A-TTTTATTATT
1 ATTTTTATTATT
*
102025575 ATATTTATTATT
1 ATTTTTATTATT
*
102025587 ATTTGCTATTATT
1 ATTT-TTATTATT
* *
102025600 ATTATTAGTAGTAT
1 ATTTTTATTA-T-T
*
102025614 ATTTTTACTATT
1 ATTTTTATTATT
102025626 ATT
1 ATT
102025629 AGTATTATTT
Statistics
Matches: 52, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
11 10 0.19
12 21 0.40
13 12 0.23
14 9 0.17
ACGTcount: A:0.27, C:0.03, G:0.04, T:0.66
Consensus pattern (12 bp):
ATTTTTATTATT
Found at i:102025575 original size:3 final size:3
Alignment explanation
Indices: 102025556--102025637 Score: 55
Period size: 3 Copynumber: 27.7 Consensus size: 3
102025546 TTTACCATTT
*
102025556 TTA TTT TTA TT- TTA TTA TTA -TA TTTA TTA TTA TT- TGCTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA T--TA TTA TTA
* * * * *
102025601 TTA TTA GTA GTA -TA TTT TTA CTA TTA TTA GTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
102025638 TGTCTTTTTT
Statistics
Matches: 63, Mismatches: 9, Indels: 14
0.73 0.10 0.16
Matches are distributed among these distances:
2 7 0.11
3 52 0.83
4 3 0.05
5 1 0.02
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:102025585 original size:26 final size:25
Alignment explanation
Indices: 102025533--102025604 Score: 72
Period size: 26 Copynumber: 2.7 Consensus size: 25
102025523 TTTAATTTGG
* *
102025533 TTTTTATATTATTTTTACCATTTTTA
1 TTTTTATATTATTATTA-TATTTTTA
*
102025559 TTTTTATTTTATTATTATATTTATTA
1 TTTTTATATTATTATTATATTT-TTA
*
102025585 TTATTTGCTATTATTATTAT
1 TT-TTT-ATATTATTATTAT
102025605 TAGTAGTATA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
25 4 0.11
26 20 0.53
27 3 0.08
28 11 0.29
ACGTcount: A:0.25, C:0.04, G:0.01, T:0.69
Consensus pattern (25 bp):
TTTTTATATTATTATTATATTTTTA
Found at i:102025588 original size:23 final size:24
Alignment explanation
Indices: 102025555--102025601 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
102025545 TTTTACCATT
*
102025555 TTTATTTTTATTT-TATTATTATA
1 TTTATTATTATTTCTATTATTATA
102025578 TTTATTATTATTTGCTATTATTAT
1 TTTATTATTATTT-CTATTATTAT
102025602 TATTAGTAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 12 0.57
25 9 0.43
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (24 bp):
TTTATTATTATTTCTATTATTATA
Found at i:102025616 original size:20 final size:20
Alignment explanation
Indices: 102025593--102025633 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
102025583 TATTATTTGC
*
102025593 TATTATTATTATTAGTAGTA
1 TATTATTACTATTAGTAGTA
* *
102025613 TATTTTTACTATTATTAGTA
1 TATTATTACTATTAGTAGTA
102025633 T
1 T
102025634 TATTTGTCTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.02, G:0.07, T:0.59
Consensus pattern (20 bp):
TATTATTACTATTAGTAGTA
Found at i:102025759 original size:24 final size:24
Alignment explanation
Indices: 102025732--102025789 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
102025722 ATATGTTATG
*
102025732 TATACATATTTAAATACTATATTA
1 TATACATATTTAAATACTACATTA
* * *
102025756 TATACATATTTTAATGCTACGTTA
1 TATACATATTTAAATACTACATTA
102025780 TATACATATT
1 TATACATATT
102025790 ATTATTATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.40, C:0.10, G:0.03, T:0.47
Consensus pattern (24 bp):
TATACATATTTAAATACTACATTA
Found at i:102025851 original size:24 final size:25
Alignment explanation
Indices: 102025824--102025907 Score: 63
Period size: 24 Copynumber: 3.5 Consensus size: 25
102025814 ATCATATTTG
102025824 TTATTAGTAT-TAGTATATATTTTA
1 TTATTAGTATATAGTATATATTTTA
* * *
102025848 TTA-TATGTGTGTA-TATATACTTTA
1 TTATTA-GTATATAGTATATATTTTA
102025872 TT-TTA-TATATAGTAT-TATTTTTA
1 TTATTAGTATATAGTATATA-TTTTA
*
102025895 TATATTATTATAT
1 T-TATTAGTATAT
102025908 TTATTATTAT
Statistics
Matches: 47, Mismatches: 5, Indels: 14
0.71 0.08 0.21
Matches are distributed among these distances:
22 6 0.13
23 10 0.21
24 21 0.45
25 5 0.11
26 5 0.11
ACGTcount: A:0.32, C:0.01, G:0.07, T:0.60
Consensus pattern (25 bp):
TTATTAGTATATAGTATATATTTTA
Found at i:102025880 original size:16 final size:17
Alignment explanation
Indices: 102025859--102025929 Score: 74
Period size: 16 Copynumber: 4.1 Consensus size: 17
102025849 TATATGTGTG
102025859 TATATATACT-TTATTT
1 TATATATACTATTATTT
*
102025875 TATATATAGTATTATTT
1 TATATATACTATTATTT
*
102025892 T-TATATATTATTATATT
1 TATATATACTATTAT-TT
102025909 TATTATTATACTTATTATTT
1 TA-TA-TATAC-TATTATTT
102025929 T
1 T
102025930 CACTATTGTT
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
16 21 0.46
17 10 0.22
19 2 0.04
20 7 0.15
21 6 0.13
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.63
Consensus pattern (17 bp):
TATATATACTATTATTT
Found at i:102025914 original size:12 final size:12
Alignment explanation
Indices: 102025831--102025927 Score: 54
Period size: 12 Copynumber: 7.6 Consensus size: 12
102025821 TTGTTATTAG
*
102025831 TATTAGTATATAT
1 TATTATTATAT-T
*
102025844 T-TTATTATATG
1 TATTATTATATT
*
102025855 TGTGTATATATACTT
1 TAT-TAT-TATA-TT
102025870 TATT-TTATATAT
1 TATTATTATAT-T
* *
102025882 AGTATTATTTTTATA
1 --TATTA-TTATATT
102025897 TATTATTATATT
1 TATTATTATATT
*
102025909 TATTATTATACT
1 TATTATTATATT
102025921 TATTATT
1 TATTATT
102025928 TTCACTATTG
Statistics
Matches: 66, Mismatches: 9, Indels: 19
0.70 0.10 0.20
Matches are distributed among these distances:
11 2 0.03
12 37 0.56
13 10 0.15
14 9 0.14
15 3 0.05
16 5 0.08
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (12 bp):
TATTATTATATT
Found at i:102026089 original size:20 final size:22
Alignment explanation
Indices: 102026043--102026090 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 22
102026033 ATCACTATCA
102026043 TTTTTATACTATTATTATTATT
1 TTTTTATACTATTATTATTATT
*
102026065 ATTTTATA-T-TTAGTTA-TATT
1 TTTTTATACTATTA-TTATTATT
102026085 TTTTTA
1 TTTTTA
102026091 AATATCTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 12 0.52
21 4 0.17
22 7 0.30
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (22 bp):
TTTTTATACTATTATTATTATT
Found at i:102026141 original size:15 final size:15
Alignment explanation
Indices: 102026121--102026149 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
102026111 TATGCATATA
102026121 TATATTTATTATTAT
1 TATATTTATTATTAT
102026136 TATATTTATTATTA
1 TATATTTATTATTA
102026150 ACATTATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TATATTTATTATTAT
Found at i:102026319 original size:26 final size:26
Alignment explanation
Indices: 102026290--102026371 Score: 60
Period size: 26 Copynumber: 3.1 Consensus size: 26
102026280 TGTTTTTATG
102026290 TATTTCATATATATATTTTTTAATAT
1 TATTTCATATATATATTTTTTAATAT
*** * *
102026316 TATTAGTTATGTATTTTTTTTATATAT
1 TATTTCATATATATATTTTTTA-ATAT
* *
102026343 ACTGTTTCATGTATATA-TTTTT-ATAT
1 --TATTTCATATATATATTTTTTAATAT
102026369 TAT
1 TAT
102026372 CCTTATTATT
Statistics
Matches: 40, Mismatches: 13, Indels: 8
0.66 0.21 0.13
Matches are distributed among these distances:
24 2 0.05
26 21 0.52
27 4 0.10
28 5 0.12
29 8 0.20
ACGTcount: A:0.29, C:0.04, G:0.05, T:0.62
Consensus pattern (26 bp):
TATTTCATATATATATTTTTTAATAT
Found at i:102026435 original size:23 final size:25
Alignment explanation
Indices: 102026408--102026454 Score: 80
Period size: 23 Copynumber: 2.0 Consensus size: 25
102026398 TATGTTTTAT
102026408 TATATGTATATATTT-T-TAATATA
1 TATATGTATATATTTATGTAATATA
102026431 TATATGTATATATTTATGTAATAT
1 TATATGTATATATTTATGTAATAT
102026455 TATTAATAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 15 0.68
24 1 0.05
25 6 0.27
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.55
Consensus pattern (25 bp):
TATATGTATATATTTATGTAATATA
Found at i:102026792 original size:34 final size:33
Alignment explanation
Indices: 102026749--102026824 Score: 84
Period size: 34 Copynumber: 2.3 Consensus size: 33
102026739 ATTATTCCTA
*
102026749 GTATA-TATATACTATGTATACATTCTTTAAATAC
1 GTATATTATATAC-ATATATACATT-TTTAAATAC
* *
102026783 -TATATTATATACATATATATATTTTTTAATAC
1 GTATATTATATACATATATACATTTTTAAATAC
102026815 TGTATATTAT
1 -GTATATTAT
102026825 TATTTATTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
32 8 0.22
33 13 0.36
34 15 0.42
ACGTcount: A:0.38, C:0.08, G:0.04, T:0.50
Consensus pattern (33 bp):
GTATATTATATACATATATACATTTTTAAATAC
Found at i:102033070 original size:20 final size:19
Alignment explanation
Indices: 102033047--102033095 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 19
102033037 TTTTCTTTCA
*
102033047 AATATTGTTATTGTTATTTT
1 AATATTATTATTGTT-TTTT
102033067 AATATTATTA--GTTTTTT
1 AATATTATTATTGTTTTTT
*
102033084 AATATTCTTATT
1 AATATTATTATT
102033096 ATTAATTGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
17 13 0.52
18 3 0.12
20 9 0.36
ACGTcount: A:0.29, C:0.02, G:0.06, T:0.63
Consensus pattern (19 bp):
AATATTATTATTGTTTTTT
Found at i:102035635 original size:37 final size:37
Alignment explanation
Indices: 102035585--102035659 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
102035575 ATTCATTGCA
*
102035585 AAGGAATGTGCCATTTATGTTGTCAACTTTTCTAGTT
1 AAGGAATGTGCCATTTATGCTGTCAACTTTTCTAGTT
102035622 AAGGAATGTGCCATTTATGCTGTCAACTTTTCTAGTT
1 AAGGAATGTGCCATTTATGCTGTCAACTTTTCTAGTT
102035659 A
1 A
102035660 GTGTTTACTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.41
Consensus pattern (37 bp):
AAGGAATGTGCCATTTATGCTGTCAACTTTTCTAGTT
Found at i:102035917 original size:23 final size:23
Alignment explanation
Indices: 102035890--102035943 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
102035880 TTCGTGAACA
*
102035890 TAAACGAACATGTTTGCGAACGT
1 TAAACGAACATGTTTGCGAACGC
* *
102035913 TAAACGAACATGTTTGTGAATGC
1 TAAACGAACATGTTTGCGAACGC
102035936 TAAACGAA
1 TAAACGAA
102035944 TCGAGCCCGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.26
Consensus pattern (23 bp):
TAAACGAACATGTTTGCGAACGC
Found at i:102037089 original size:123 final size:123
Alignment explanation
Indices: 102036853--102037095 Score: 371
Period size: 123 Copynumber: 2.0 Consensus size: 123
102036843 ATAAATTATG
* * * * *
102036853 TTTTACAGTAATGCCATTTCCCGTTTTCTAACCCTGAATGAGAAAATTTGTCAATTATAATGGAA
1 TTTTACAGTAATGACATTTCCCATTTTCTAACCCCGAATGAGAAAATTTGTCAAATATAACGGAA
* *
102036918 ACCATCCAAGTCTCGCTCTTTGATACCTCCGCTTAAGAGGCTTTCGGTGAATATCATA
66 ACCACCCAAGTCTCGCTCTTTGATACCTCCGCTTAAGAAGCTTTCGGTGAATATCATA
*
102036976 TTTTACAGTAATGACATTTCCCATTTTTTAACCCCGAATGAGAAAGATTTGTCAAATATAACGGA
1 TTTTACAGTAATGACATTTCCCATTTTCTAACCCCGAATGAGAAA-ATTTGTCAAATATAACGGA
* **
102037041 AAGCACCCAAGTCTCGCTCTTTGATACCTCCGC-TGGGAAGCTTTCGGTGAATATC
65 AACCACCCAAGTCTCGCTCTTTGATACCTCCGCTTAAGAAGCTTTCGGTGAATATC
102037096 CATCAACCGA
Statistics
Matches: 108, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
123 60 0.56
124 48 0.44
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (123 bp):
TTTTACAGTAATGACATTTCCCATTTTCTAACCCCGAATGAGAAAATTTGTCAAATATAACGGAA
ACCACCCAAGTCTCGCTCTTTGATACCTCCGCTTAAGAAGCTTTCGGTGAATATCATA
Found at i:102039783 original size:2 final size:2
Alignment explanation
Indices: 102039776--102039805 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
102039766 ATAAAATAAC
102039776 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
102039806 AGTTTAGAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:102042360 original size:206 final size:205
Alignment explanation
Indices: 102042029--102042700 Score: 936
Period size: 206 Copynumber: 3.3 Consensus size: 205
102042019 CAGGGATGAA
** * * * * * *
102042029 AAATCATCTTAAATCTTGCATCAGTCTAATCGTCTGAAGGTGAGATCTGCTGTGCATCTGCTCTC
1 AAATCATCTTGGATCTTGCTTCAGTCTAAACATCTGAAGGTGAGATCTACTATGTATCTGCTCTC
*
102042094 CATCAAAATGGAGATGCCAGACTTCGACTTGTTCTCTGACAATACAGAGAT-AACAAATCATCTT
66 CATC-AAATGGAGATGCCAGACTTCGATTTGTTCTCTGACAATACAGAGATGAA-AAATCATCTT
* * *
102042158 AGATTTGCTTCAGCATAAACACGTAAAAGCCAAATCAGCTATGTCTTCAATTTGCTCCTTGTAAG
129 AGATTTGCTTCAGCGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAG
102042223 CACAAGGATGCC
194 CACAAGGATGCC
* * *
102042235 AAATCATCTTGGATCTTGCTTCAGTCTAAACGTCTAAAGGTAAGATCTACTATGTATCTGCTCTC
1 AAATCATCTTGGATCTTGCTTCAGTCTAAACATCTGAAGGTGAGATCTACTATGTATCTGCTCTC
102042300 CATCAAAGTGGAGATGCCAGACTTCGATTTGTTCTCTGACAATACAGAGATGAAAAATCATCTTA
66 CATCAAA-TGGAGATGCCAGACTTCGATTTGTTCTCTGACAATACAGAGATGAAAAATCATCTTA
* * *
102042365 GATTTGCTTCAGCGTAAACACTTGAAAGTCAAATCAGCTATGTCTTTGATTTGCTCCTTGTAAGC
130 GATTTGCTTCAGCGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGC
102042430 ACAAGGATGCC
195 ACAAGGATGCC
* * * *
102042441 AAACCATCTTGGATCTTGCTTCAGT-GAAACCATCTGAAGGTGAGATCTGCTATGTGTCTGCTCT
1 AAATCATCTTGGATCTTGCTTCAGTCTAAA-CATCTGAAGGTGAGATCTACTATGTATCTGCTCT
* * * * **
102042505 CCACCGAATATGGAGACGCCAAACTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCT
65 CCATC-AA-ATGGAGATGCCAGACTTCGATTTGTTCTCTGACAATACAGAGATGAAAAATCATCT
* * * * *
102042570 TAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATCAGCTACGTCTTCGATTTGTTCTTTGTAA
128 TAGATTTGCTTCAGCGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAA
102042635 GCACAAGGATGCC
193 GCACAAGGATGCC
* * **
102042648 AAATCATCTTGGATC-TGCTTCAGTATAAACATATGAAGGCCAGATCTACTATG
1 AAATCATCTTGGATCTTGCTTCAGTCTAAACATCTGAAGGTGAGATCTACTATG
102042701 CTACGACCTA
Statistics
Matches: 417, Mismatches: 43, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
205 6 0.01
206 269 0.65
207 141 0.34
208 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (205 bp):
AAATCATCTTGGATCTTGCTTCAGTCTAAACATCTGAAGGTGAGATCTACTATGTATCTGCTCTC
CATCAAATGGAGATGCCAGACTTCGATTTGTTCTCTGACAATACAGAGATGAAAAATCATCTTAG
ATTTGCTTCAGCGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCA
CAAGGATGCC
Found at i:102050801 original size:14 final size:14
Alignment explanation
Indices: 102050778--102050807 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
102050768 ATTCTGGTTC
102050778 AACTTCATTTAGAA
1 AACTTCATTTAGAA
*
102050792 AACTTTATTTAGAA
1 AACTTCATTTAGAA
102050806 AA
1 AA
102050808 AGAATATCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.37
Consensus pattern (14 bp):
AACTTCATTTAGAA
Found at i:102055594 original size:40 final size:39
Alignment explanation
Indices: 102055535--102055742 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 39
102055525 TGGAATACAA
* *
102055535 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA-CACTTGCACAAATGCCTTCGGGTCTTAGC
* *
102055575 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAAC-ACTTGCACAAATGCCTTCGGGTCTTAGC
* *
102055615 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAAC-ACTTGCACAAATGCCTTCGGGTCTTAGC
* ** * *
102055655 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATAT-AACACTTGCACAAAT-GCCTTCGGGTCTTAGC
* * * * *
102055695 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAA-CACTTGCACAAATGCCTTCGGGTCTTAGC
102055735 CCGGATAT
1 CCGGATAT
102055743 CATTCAATTG
Statistics
Matches: 141, Mismatches: 22, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
39 4 0.03
40 133 0.94
41 4 0.03
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:102055675 original size:80 final size:80
Alignment explanation
Indices: 102055535--102055741 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
102055525 TGGAATACAA
* * *
102055535 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
102055599 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
102055615 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
102055679 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
102055695 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
102055742 TCATTCAATT
Statistics
Matches: 107, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 3 0.03
80 102 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:102063597 original size:40 final size:39
Alignment explanation
Indices: 102063552--102063759 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
102063542 CGGAATACAA
*
102063552 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
102063592 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
102063632 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
102063672 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
102063712 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
102063752 CCGGATAT
1 CCGGATAT
102063760 CATTCAATTG
Statistics
Matches: 141, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 4 0.03
40 134 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:102063692 original size:80 final size:80
Alignment explanation
Indices: 102063552--102063758 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
102063542 CGGAATACAA
* * *
102063552 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
102063616 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
102063632 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
102063696 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
102063712 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
102063759 TCATTCAATT
Statistics
Matches: 107, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 3 0.03
80 102 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:102067481 original size:26 final size:26
Alignment explanation
Indices: 102067451--102067502 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
102067441 ATGACCACGA
102067451 GATAGTCTCTTTTGCGGAGATATCGG
1 GATAGTCTCTTTTGCGGAGATATCGG
*
102067477 GATAGTCTCTTTTGCGGAGATCTCGG
1 GATAGTCTCTTTTGCGGAGATATCGG
102067503 CGTCAACGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.17, C:0.17, G:0.31, T:0.35
Consensus pattern (26 bp):
GATAGTCTCTTTTGCGGAGATATCGG
Found at i:102071568 original size:68 final size:68
Alignment explanation
Indices: 102071459--102071594 Score: 272
Period size: 68 Copynumber: 2.0 Consensus size: 68
102071449 AATTATATAC
102071459 TATCATATTTTAACGGAGTTAAATTATATACTATCATGTCAACTGTAAAGGTTATGCCATTAAGG
1 TATCATATTTTAACGGAGTTAAATTATATACTATCATGTCAACTGTAAAGGTTATGCCATTAAGG
102071524 GAA
66 GAA
102071527 TATCATATTTTAACGGAGTTAAATTATATACTATCATGTCAACTGTAAAGGTTATGCCATTAAGG
1 TATCATATTTTAACGGAGTTAAATTATATACTATCATGTCAACTGTAAAGGTTATGCCATTAAGG
102071592 GAA
66 GAA
102071595 AGATGACATT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (68 bp):
TATCATATTTTAACGGAGTTAAATTATATACTATCATGTCAACTGTAAAGGTTATGCCATTAAGG
GAA
Found at i:102072140 original size:90 final size:89
Alignment explanation
Indices: 102071907--102072231 Score: 440
Period size: 90 Copynumber: 3.7 Consensus size: 89
102071897 TTTGTATCTG
* *
102071907 TAAATTTAATTTAATCTGTATTATATGTAGTTTGAATTTAAAA--TTTGTGTATTAATTTTACCC
1 TAAATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTTGTGTATTAATTTTACCC
*
102071970 ATCTGTTTGTAATTTGTTGGGTGT
66 ATCTGTTTGTAGTTTGTTGGGTGT
* * ** * * * *
102071994 TTAACTTAATTTAGTCTATATTATATATAGTTTGAATTTTAAATTTTCGTGCATTAATTTTACCC
1 TAAATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTTGTGTATTAATTTTACCC
*
102072059 ATCTGTTTTTAGTTTGTTGGGTGCT
66 ATCTGTTTGTAGTTTGTTGGGTG-T
*
102072084 TAAATTTAATTTAGCCCGTATTATATGTAGTTTGAATTTAAAATTTTTGTGTATTAATTTTACCC
1 TAAATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTTGTGTATTAATTTTACCC
102072149 ATCTGTTTGTAGTTTGTTGGGTGTT
66 ATCTGTTTGTAGTTTGTTGGGTG-T
* * * * *
102072174 TAAATTTAATTTAGTACGTATTATTTGTTA-TTTGAATTTTATATTTTTGTGGATTAAT
1 TAAATTTAATTTAGTCCGTATTATATG-TAGTTTGAATTTAAAATTTTTGTGTATTAAT
102072232 ATTCTAGAAT
Statistics
Matches: 207, Mismatches: 27, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
87 37 0.18
89 39 0.19
90 129 0.62
91 2 0.01
ACGTcount: A:0.26, C:0.07, G:0.14, T:0.53
Consensus pattern (89 bp):
TAAATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTTGTGTATTAATTTTACCC
ATCTGTTTGTAGTTTGTTGGGTGT
Found at i:102072269 original size:179 final size:175
Alignment explanation
Indices: 102071854--102072275 Score: 521
Period size: 179 Copynumber: 2.4 Consensus size: 175
102071844 AAGGTTTCAT
* * *
102071854 TTTTATATTTTCATGTATTAATTTCTTAAAATGTTTTTATTTTTTTGTATCTGTAAATTTAATTT
1 TTTTATATTTTCGTGCATTAATTTC-TAAAATGTTTTTATTTTATTGTATCTGTAAATTTAATTT
* *
102071919 AATCTGTATTATATGTAGTTTGAATTTAAAATTTGTGTATTAATTTTACCCATCTGTTTGTAATT
65 AACCCGTATTATATGTAGTTTGAATTTAAAATTTGTGTATTAATTTTACCCATCTGTTTGTAATT
102071984 TGTTGGGTGTTTAACTTAATTTAGTCTATATTATATATAGTTTGAA
130 TGTTGGGTGTTTAACTTAATTTAGTCTATATTATATATAGTTTGAA
* ** * * **
102072030 TTTTAAATTTTCGTGCATTAATTT-TACCCATCTGTTTTTAGTTTGTTGGGTGCT-TAAATTTAA
1 TTTTATATTTTCGTGCATTAATTTCTA---AAATGTTTTTATTTTATTGTAT-CTGTAAATTTAA
*
102072093 TTTAGCCCGTATTATATGTAGTTTGAATTTAAAATTTTTGTGTATTAATTTTACCCATCTGTTTG
62 TTTAACCCGTATTATATGTAGTTTGAATTTAAAA--TTTGTGTATTAATTTTACCCATCTGTTTG
* * *
102072158 TAGTTTGTTGGGTGTTTAAATTTAATTTAGTACGTATTATT-TGT-TA-TTTGAA
125 TAATTTGTTGGGTGTTT-AACTTAATTTAGT-C-TA-TATTATATATAGTTTGAA
* * * *
102072210 TTTTATATTTTTGTGGATTAATATTCTAGAATGTTTGTATTTTATTGTATCTGTAAATTTAATTT
1 TTTTATATTTTCGTGCATTAAT-TTCTAAAATGTTTTTATTTTATTGTATCTGTAAATTTAATTT
102072275 A
65 A
102072276 TTGTGTACTA
Statistics
Matches: 207, Mismatches: 26, Indels: 23
0.81 0.10 0.09
Matches are distributed among these distances:
174 2 0.01
176 21 0.10
177 56 0.27
178 4 0.02
179 72 0.35
180 37 0.18
181 5 0.02
182 6 0.03
183 4 0.02
ACGTcount: A:0.26, C:0.06, G:0.13, T:0.54
Consensus pattern (175 bp):
TTTTATATTTTCGTGCATTAATTTCTAAAATGTTTTTATTTTATTGTATCTGTAAATTTAATTTA
ACCCGTATTATATGTAGTTTGAATTTAAAATTTGTGTATTAATTTTACCCATCTGTTTGTAATTT
GTTGGGTGTTTAACTTAATTTAGTCTATATTATATATAGTTTGAA
Found at i:102072366 original size:22 final size:20
Alignment explanation
Indices: 102072341--102072390 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
102072331 TTATTCAAAC
*
102072341 AAATAATTATTTTAGAAAAATT
1 AAATAATTATATTA-AAAAA-T
102072363 AAAT--TTATATTAAAAAAT
1 AAATAATTATATTAAAAAAT
102072381 AAAGTAATTA
1 AAA-TAATTA
102072391 CAAAATAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
18 4 0.17
19 6 0.25
20 7 0.29
21 3 0.12
22 4 0.17
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (20 bp):
AAATAATTATATTAAAAAAT
Found at i:102072395 original size:16 final size:16
Alignment explanation
Indices: 102072371--102072403 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
102072361 TTAAATTTAT
102072371 ATTAAAAAATAAAGTA
1 ATTAAAAAATAAAGTA
*
102072387 ATTACAAAATAAAGTA
1 ATTAAAAAATAAAGTA
102072403 A
1 A
102072404 ATATTTATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.67, C:0.03, G:0.06, T:0.24
Consensus pattern (16 bp):
ATTAAAAAATAAAGTA
Found at i:102074840 original size:26 final size:26
Alignment explanation
Indices: 102074809--102074916 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
102074799 TGATACAAAT
102074809 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
102074835 TTATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
102074861 TGATAATAGGTTAGGTAAATGCTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
102074887 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
102074913 TGAT
1 TGAT
102074917 GGGAATTTCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.31, C:0.07, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:102077666 original size:11 final size:10
Alignment explanation
Indices: 102077649--102077721 Score: 65
Period size: 11 Copynumber: 6.8 Consensus size: 10
102077639 TTTTTTTTAT
102077649 TTTCATTTCA
1 TTTCATTTCA
*
102077659 TTTCCATTTCCG
1 TTT-CATTT-CA
*
102077671 TTTCCGTTTCA
1 TTT-CATTTCA
*
102077682 TTTCATTTAAA
1 TTTCATTT-CA
102077693 TTTCATTTCA
1 TTTCATTTCA
*
102077703 TTTCATTTAAA
1 TTTCATTT-CA
102077714 TTTCATTT
1 TTTCATTT
102077722 TTTCTATTTA
Statistics
Matches: 52, Mismatches: 7, Indels: 7
0.79 0.11 0.11
Matches are distributed among these distances:
10 16 0.31
11 27 0.52
12 9 0.17
ACGTcount: A:0.21, C:0.19, G:0.03, T:0.58
Consensus pattern (10 bp):
TTTCATTTCA
Found at i:102077668 original size:6 final size:5
Alignment explanation
Indices: 102077649--102077721 Score: 65
Period size: 5 Copynumber: 13.6 Consensus size: 5
102077639 TTTTTTTTAT
* * *
102077649 TTTCA TTTCA TTTCCA TTTCCG TTTCCG TTTCA TTTCA TTTAAA TTTCA
1 TTTCA TTTCA TTT-CA TTT-CA TTT-CA TTTCA TTTCA TTT-CA TTTCA
*
102077698 TTTCA TTTCA TTTAAA TTTCA TTT
1 TTTCA TTTCA TTT-CA TTTCA TTT
102077722 TTTCTATTTA
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
5 35 0.59
6 24 0.41
ACGTcount: A:0.21, C:0.19, G:0.03, T:0.58
Consensus pattern (5 bp):
TTTCA
Found at i:102077668 original size:16 final size:16
Alignment explanation
Indices: 102077649--102077721 Score: 60
Period size: 16 Copynumber: 4.5 Consensus size: 16
102077639 TTTTTTTTAT
102077649 TTTCATTT-CATTTCCA
1 TTTCATTTACATTT-CA
* * *
102077665 TTTCCGTTTCCGTTTCA
1 TTT-CATTTACATTTCA
*
102077682 TTTCATTTAAATTTCA
1 TTTCATTTACATTTCA
*
102077698 TTTCATTT-CATTTAAA
1 TTTCATTTACATTT-CA
102077714 TTTCATTT
1 TTTCATTT
102077722 TTTCTATTTA
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
15 4 0.09
16 29 0.63
17 9 0.20
18 4 0.09
ACGTcount: A:0.21, C:0.19, G:0.03, T:0.58
Consensus pattern (16 bp):
TTTCATTTACATTTCA
Found at i:102077745 original size:21 final size:20
Alignment explanation
Indices: 102077682--102077753 Score: 92
Period size: 21 Copynumber: 3.5 Consensus size: 20
102077672 TTCCGTTTCA
*
102077682 TTTCATTTAAATTTCATTTCA
1 TTTCATTTAAATTTCATTT-T
102077703 TTTCATTTAAATTTCA-TTT
1 TTTCATTTAAATTTCATTTT
*
102077722 TTTCTATTTAAATTTAATTTT
1 TTTC-ATTTAAATTTCATTTT
102077743 TTTCATATTAA
1 TTTCAT-TTAA
102077754 TAACAAGTAG
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
19 4 0.09
20 15 0.33
21 27 0.59
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTCATTTAAATTTCATTTT
Found at i:102077829 original size:17 final size:17
Alignment explanation
Indices: 102077799--102077900 Score: 70
Period size: 17 Copynumber: 5.7 Consensus size: 17
102077789 CAGTATTTGT
102077799 TTTCATTTCAATTTATAA
1 TTTCATTTC-ATTTATAA
102077817 TTT-ATTTTCATTTA-AA
1 TTTCA-TTTCATTTATAA
102077833 CTTTCATTTCATTTCATAA
1 -TTTCATTTCATTT-ATAA
*
102077852 TCATTACAAATTCA-TT-TAA
1 T--TT-C-ATTTCATTTATAA
102077871 TTTCATATTCATTTA-ACA
1 TTTCAT-TTCATTTATA-A
102077889 TTTCATTTCATT
1 TTTCATTTCATT
102077901 AATTTTTTTC
Statistics
Matches: 69, Mismatches: 2, Indels: 27
0.70 0.02 0.28
Matches are distributed among these distances:
15 1 0.01
16 7 0.10
17 28 0.41
18 17 0.25
19 6 0.09
20 2 0.03
21 3 0.04
22 5 0.07
ACGTcount: A:0.31, C:0.15, G:0.00, T:0.54
Consensus pattern (17 bp):
TTTCATTTCATTTATAA
Found at i:102077844 original size:5 final size:5
Alignment explanation
Indices: 102077834--102077900 Score: 53
Period size: 5 Copynumber: 12.4 Consensus size: 5
102077824 TCATTTAAAC
* * * *
102077834 TTTCA TTTCA TTTCA TAATCA TTACAA ATTCA TTTAA TTTCA TATTCA
1 TTTCA TTTCA TTTCA T-TTCA TTTC-A TTTCA TTTCA TTTCA T-TTCA
102077882 TTTAACA TTTCA TTTCA TT
1 TTT--CA TTTCA TTTCA TT
102077901 AATTTTTTTC
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
5 32 0.65
6 12 0.24
7 5 0.10
ACGTcount: A:0.31, C:0.16, G:0.00, T:0.52
Consensus pattern (5 bp):
TTTCA
Found at i:102077846 original size:27 final size:28
Alignment explanation
Indices: 102077823--102077900 Score: 90
Period size: 27 Copynumber: 2.8 Consensus size: 28
102077813 ATAATTTATT
102077823 TTCATTTAAACTTTCATTTCATTTCATA
1 TTCATTTAAACTTTCATTTCATTTCATA
* * *
102077851 ATCA-TTACAA-ATTCATTTAATTTCATA
1 TTCATTTA-AACTTTCATTTCATTTCATA
102077878 TTCATTT-AACATTTCATTTCATT
1 TTCATTTAAAC-TTTCATTTCATT
102077901 AATTTTTTTC
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
26 2 0.05
27 21 0.52
28 17 0.43
ACGTcount: A:0.32, C:0.17, G:0.00, T:0.51
Consensus pattern (28 bp):
TTCATTTAAACTTTCATTTCATTTCATA
Found at i:102077882 original size:16 final size:16
Alignment explanation
Indices: 102077861--102077905 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
102077851 ATCATTACAA
102077861 ATTCATTTAATTTCAT
1 ATTCATTTAATTTCAT
102077877 ATTCATTTAACATTTCAT
1 ATTCATTT-A-ATTTCAT
102077895 -TTCA-TTAATTT
1 ATTCATTTAATTT
102077906 TTTTCCATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
14 4 0.15
15 1 0.04
16 10 0.37
17 5 0.19
18 7 0.26
ACGTcount: A:0.31, C:0.13, G:0.00, T:0.56
Consensus pattern (16 bp):
ATTCATTTAATTTCAT
Found at i:102078310 original size:5 final size:5
Alignment explanation
Indices: 102078302--102078407 Score: 68
Period size: 5 Copynumber: 18.2 Consensus size: 5
102078292 AATTTTCTTT
*
102078302 TTTCA TTTCA TTTTCAA TTTTCAA TTTTCA TTTCTAA ATTCA TTTCA TTTTCA
1 TTTCA TTTCA -TTTC-A -TTTC-A -TTTCA TTTC--A TTTCA TTTCA -TTTCA
102078355 TTTCTCA TTTCA TTTCA TTTTCA TTTCTCA TTTCA TTTCACA TTTCA TTTCA
1 -TT-TCA TTTCA TTTCA -TTTCA -TT-TCA TTTCA TTT--CA TTTCA TTTCA
102078407 T
1 T
102078408 CTACTTTTTT
Statistics
Matches: 89, Mismatches: 2, Indels: 20
0.80 0.02 0.18
Matches are distributed among these distances:
5 36 0.40
6 25 0.28
7 28 0.31
ACGTcount: A:0.22, C:0.20, G:0.00, T:0.58
Consensus pattern (5 bp):
TTTCA
Found at i:102078315 original size:12 final size:12
Alignment explanation
Indices: 102078295--102078407 Score: 67
Period size: 12 Copynumber: 9.5 Consensus size: 12
102078285 TTGTCAAAAT
*
102078295 TTTCTTTTTTCA
1 TTTCATTTTTCA
102078307 TTTCA-TTTTCAA
1 TTTCATTTTTC-A
*
102078319 TTTTCAATTTTCA
1 -TTTCATTTTTCA
**
102078332 TTTC-TAAATTCA
1 TTTCAT-TTTTCA
102078344 TTTCA-TTTTCA
1 TTTCATTTTTCA
*
102078355 TTTC-TCATTTCA
1 TTTCAT-TTTTCA
102078367 TTTCA-TTTTCA
1 TTTCATTTTTCA
*
102078378 TTTC-TCATTTCA
1 TTTCAT-TTTTCA
**
102078390 TTTCACATTTCA
1 TTTCATTTTTCA
102078402 TTTCAT
1 TTTCAT
102078408 CTACTTTTTT
Statistics
Matches: 79, Mismatches: 11, Indels: 22
0.71 0.10 0.20
Matches are distributed among these distances:
11 22 0.28
12 46 0.58
13 6 0.08
14 5 0.06
ACGTcount: A:0.20, C:0.19, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTCATTTTTCA
Found at i:102078316 original size:18 final size:18
Alignment explanation
Indices: 102078301--102078381 Score: 82
Period size: 18 Copynumber: 4.6 Consensus size: 18
102078291 AAATTTTCTT
102078301 TTTTCATTTCATTTTCAA
1 TTTTCATTTCATTTTCAA
102078319 TTTTCAATTTTCA-TTTCTAA
1 TTTTC-A-TTTCATTTTC-AA
*
102078339 -ATTCATTTCATTTTC-A
1 TTTTCATTTCATTTTCAA
102078355 TTTCTCATTTCA-TTTC-A
1 TTT-TCATTTCATTTTCAA
102078372 TTTTCATTTC
1 TTTTCATTTC
102078382 TCATTTCATT
Statistics
Matches: 55, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
16 8 0.15
17 14 0.25
18 18 0.33
19 8 0.15
20 7 0.13
ACGTcount: A:0.21, C:0.19, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTTCATTTCATTTTCAA
Found at i:102078355 original size:23 final size:23
Alignment explanation
Indices: 102078320--102078405 Score: 127
Period size: 23 Copynumber: 3.7 Consensus size: 23
102078310 CATTTTCAAT
* *
102078320 TTTCAATTTTCATTTCTAAATTCA
1 TTTC-ATTTTCATTTCTCATTTCA
102078344 TTTCATTTTCATTTCTCATTTCA
1 TTTCATTTTCATTTCTCATTTCA
102078367 TTTCATTTTCATTTCTCATTTCA
1 TTTCATTTTCATTTCTCATTTCA
*
102078390 TTTCACATTTCATTTC
1 TTTCA-TTTTCATTTC
102078406 ATCTACTTTT
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
23 45 0.78
24 13 0.22
ACGTcount: A:0.21, C:0.21, G:0.00, T:0.58
Consensus pattern (23 bp):
TTTCATTTTCATTTCTCATTTCA
Found at i:102078435 original size:15 final size:15
Alignment explanation
Indices: 102078350--102078439 Score: 63
Period size: 17 Copynumber: 5.5 Consensus size: 15
102078340 TTCATTTCAT
*
102078350 TTTCATTTCTCATTTCA
1 TTTCATTT-ACATTT-A
*
102078367 TTTCATTTTCATTTCTCA
1 TTTCATTTACA-TT-T-A
102078385 TTTCATTTCACATTTCA
1 TTTCATTT-ACATTT-A
* * *
102078402 TTTCATCTACTTTTT
1 TTTCATTTACATTTA
*
102078417 TTTCATTTAAATTTA
1 TTTCATTTACATTTA
102078432 TTTCATTT
1 TTTCATTT
102078440 TCCATTTTAA
Statistics
Matches: 62, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
15 19 0.31
16 8 0.13
17 20 0.32
18 13 0.21
19 2 0.03
ACGTcount: A:0.20, C:0.19, G:0.00, T:0.61
Consensus pattern (15 bp):
TTTCATTTACATTTA
Found at i:102078462 original size:22 final size:20
Alignment explanation
Indices: 102078412--102078518 Score: 67
Period size: 22 Copynumber: 5.2 Consensus size: 20
102078402 TTTCATCTAC
*
102078412 TTTTTTTTCATTTAAATTTA
1 TTTTTTTTCATTTTAATTTA
*
102078432 TTTCATTTTCCATTTTAATTTA
1 TTT--TTTTTCATTTTAATTTA
*
102078454 CGTTTTTTTTCATATTAA--T-
1 --TTTTTTTTCATTTTAATTTA
* *
102078473 TTTTGTCTCATTTTAATTTA
1 TTTTTTTTCATTTTAATTTA
** *
102078493 TTTCATTTCAATTTATACTTTA
1 TTTTTTTTC-ATTT-TAATTTA
102078515 TTTT
1 TTTT
102078519 CATTTCATAT
Statistics
Matches: 66, Mismatches: 12, Indels: 16
0.70 0.13 0.17
Matches are distributed among these distances:
17 13 0.20
19 1 0.02
20 10 0.15
21 4 0.06
22 35 0.53
24 3 0.05
ACGTcount: A:0.22, C:0.10, G:0.02, T:0.65
Consensus pattern (20 bp):
TTTTTTTTCATTTTAATTTA
Found at i:102078542 original size:23 final size:23
Alignment explanation
Indices: 102078491--102078577 Score: 99
Period size: 23 Copynumber: 3.8 Consensus size: 23
102078481 CATTTTAATT
* *
102078491 TATTTCATTTCA-ATTTATACTTTA
1 TATTTCATTTCATATTCAT--TTAA
102078515 T-TTTCATTTCATATTCATTTAA
1 TATTTCATTTCATATTCATTTAA
102078537 TATTTCATTTCATATTCATTTAA
1 TATTTCATTTCATATTCATTTAA
*
102078560 TATTTTAGTTTCAT-TTCA
1 TATTTCA-TTTCATATTCA
102078578 AATTCATTTC
Statistics
Matches: 57, Mismatches: 3, Indels: 7
0.85 0.04 0.10
Matches are distributed among these distances:
22 4 0.07
23 41 0.72
24 12 0.21
ACGTcount: A:0.28, C:0.13, G:0.01, T:0.59
Consensus pattern (23 bp):
TATTTCATTTCATATTCATTTAA
Found at i:102078545 original size:12 final size:12
Alignment explanation
Indices: 102078516--102078564 Score: 66
Period size: 11 Copynumber: 4.2 Consensus size: 12
102078506 TATACTTTAT
*
102078516 TTTCATTTCATA
1 TTTCATTTAATA
102078528 -TTCATTTAATA
1 TTTCATTTAATA
*
102078539 TTTCATTTCATA
1 TTTCATTTAATA
102078551 -TTCATTTAATA
1 TTTCATTTAATA
102078562 TTT
1 TTT
102078565 TAGTTTCATT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
11 20 0.62
12 12 0.38
ACGTcount: A:0.29, C:0.12, G:0.00, T:0.59
Consensus pattern (12 bp):
TTTCATTTAATA
Found at i:102078554 original size:29 final size:29
Alignment explanation
Indices: 102078495--102078617 Score: 136
Period size: 29 Copynumber: 4.5 Consensus size: 29
102078485 TTAATTTATT
* *
102078495 TCAT-TTCAATTT-ATACTTTATTTTCATT
1 TCATATTC-ATTTCATATTTTAGTTTCATT
102078523 TCATATTCATTT-A-A---TA-TTTCATT
1 TCATATTCATTTCATATTTTAGTTTCATT
*
102078546 TCATATTCATTTAATATTTTAGTTTCATT
1 TCATATTCATTTCATATTTTAGTTTCATT
* *
102078575 TCAAATTCATTTCATATTTTATTTTCATT
1 TCATATTCATTTCATATTTTAGTTTCATT
102078604 TCATATTCATTTCA
1 TCATATTCATTTCA
102078618 CTTTATTCAC
Statistics
Matches: 84, Mismatches: 4, Indels: 13
0.83 0.04 0.13
Matches are distributed among these distances:
23 19 0.23
24 3 0.04
25 1 0.01
27 1 0.01
28 11 0.13
29 49 0.58
ACGTcount: A:0.28, C:0.14, G:0.01, T:0.58
Consensus pattern (29 bp):
TCATATTCATTTCATATTTTAGTTTCATT
Found at i:102078593 original size:18 final size:18
Alignment explanation
Indices: 102078572--102078610 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
102078562 TTTTAGTTTC
102078572 ATTTCAAATTCATTTCAT
1 ATTTCAAATTCATTTCAT
* **
102078590 ATTTTATTTTCATTTCAT
1 ATTTCAAATTCATTTCAT
102078608 ATT
1 ATT
102078611 CATTTCACTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.13, G:0.00, T:0.59
Consensus pattern (18 bp):
ATTTCAAATTCATTTCAT
Found at i:102078598 original size:23 final size:24
Alignment explanation
Indices: 102078513--102078577 Score: 100
Period size: 23 Copynumber: 2.8 Consensus size: 24
102078503 ATTTATACTT
102078513 TATTTTCATTTCATATTCATTTAA
1 TATTTTCATTTCATATTCATTTAA
102078537 TA-TTTCATTTCATATTCATTTAA
1 TATTTTCATTTCATATTCATTTAA
102078560 TATTTT-AGTTTCAT-TTCA
1 TATTTTCA-TTTCATATTCA
102078578 AATTCATTTC
Statistics
Matches: 39, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
23 28 0.72
24 11 0.28
ACGTcount: A:0.28, C:0.12, G:0.02, T:0.58
Consensus pattern (24 bp):
TATTTTCATTTCATATTCATTTAA
Found at i:102078606 original size:23 final size:23
Alignment explanation
Indices: 102078340--102078613 Score: 68
Period size: 23 Copynumber: 11.4 Consensus size: 23
102078330 CATTTCTAAA
*
102078340 TTCATTTCAT-TTTCATTTCTCAT
1 TTCATTTCATATTTTATTT-TCAT
*
102078363 TTCATTTCAT-TTTCATTTCTCAT
1 TTCATTTCATATTTTATTT-TCAT
* *
102078386 TTCATTTCACATTTCATTTCATCTACT
1 TTCATTTCATATTTTATTT--TC-A-T
** * *
102078413 TTTTTTTC--ATTTAAATTT-AT
1 TTCATTTCATATTTTATTTTCAT
* * *
102078433 TTCATTTTCCAT-TTTAATTTACGT
1 TTCA-TTT-CATATTTTATTTTCAT
** * **
102078457 TTTTTTTCATA-TTAATTTTTGT
1 TTCATTTCATATTTTATTTTCAT
* *
102078479 CTCATTT--TAATTTA-TTTCAT
1 TTCATTTCATATTTTATTTTCAT
*
102078499 TTCAATTT-ATACTTTATTTTCAT
1 TTC-ATTTCATATTTTATTTTCAT
102078522 TTCATATTCATTTAATATTTCA-TTTCAT
1 TTCAT-TTCA--T-AT-TTT-ATTTTCAT
* *
102078550 ATTCATTTAATATTTTAGTTTCATTT
1 -TTCATTTCATATTTTATTTTCA--T
102078576 CAAATTCATTTCATATTTTATTTTCAT
1 ----TTCATTTCATATTTTATTTTCAT
102078603 TTCATATTCAT
1 TTCAT-TTCAT
102078614 TTCACTTTAT
Statistics
Matches: 195, Mismatches: 27, Indels: 57
0.70 0.10 0.20
Matches are distributed among these distances:
20 11 0.06
21 11 0.06
22 25 0.13
23 60 0.31
24 25 0.13
25 11 0.06
26 4 0.02
27 9 0.05
28 12 0.06
29 27 0.14
ACGTcount: A:0.24, C:0.15, G:0.01, T:0.60
Consensus pattern (23 bp):
TTCATTTCATATTTTATTTTCAT
Found at i:102079803 original size:12 final size:12
Alignment explanation
Indices: 102079786--102079810 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
102079776 TTACCATCAT
102079786 GGCCTTTCAGAC
1 GGCCTTTCAGAC
102079798 GGCCTTTCAGAC
1 GGCCTTTCAGAC
102079810 G
1 G
102079811 ACCTCATCGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.32, G:0.28, T:0.24
Consensus pattern (12 bp):
GGCCTTTCAGAC
Found at i:102081577 original size:48 final size:48
Alignment explanation
Indices: 102081506--102081681 Score: 280
Period size: 48 Copynumber: 3.7 Consensus size: 48
102081496 GTAAGATCTC
*
102081506 GTGTAAGACCATGTCAGGGACATGGCATCGGCGTTGATATGTATGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTATGCCA
*
102081554 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGCATGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTATGCCA
* * * *
102081602 GTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATGTGTGCAA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTATGCCA
* *
102081650 GTGTAATACCATGTCTAGGACATGGCATCGGC
1 GTGTAAGACCATGTCTGGGACATGGCATCGGC
102081682 ACCAATATGT
Statistics
Matches: 118, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 118 1.00
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTATGCCA
Found at i:102081690 original size:96 final size:96
Alignment explanation
Indices: 102081506--102081723 Score: 276
Period size: 96 Copynumber: 2.3 Consensus size: 96
102081496 GTAAGATCTC
* * * *
102081506 GTGTAAGACCATGTCAGGGACATGGCATCGGCGTTGATATGTATGCCAGTGTAAGACCATGTCTG
1 GTGTAAGACCATGTCAGGGACATGGCATCAGCGATGATATGTATGCAAGTGTAAGACCATGTCTA
****
102081571 GGACATGGCATCGGCGTTGATATGCATGCCA
66 GGACATGGCATCGGCACCAATATGCATGCCA
* * *
102081602 GTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATGTGTGCAAGTGTAATACCATGTCTA
1 GTGTAAGACCATGTCAGGGACATGGCATCAGCGATGATATGTATGCAAGTGTAAGACCATGTCTA
* *
102081667 GGACATGGCATCGGCACCAATATGTGAT-CCC
66 GGACATGGCATCGGCACCAATATG-CATGCCA
* * *
102081698 GTATAAGACCATATCAGGGATATGGC
1 GTGTAAGACCATGTCAGGGACATGGC
102081724 TTCGACATCA
Statistics
Matches: 104, Mismatches: 17, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
96 102 0.98
97 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.25
Consensus pattern (96 bp):
GTGTAAGACCATGTCAGGGACATGGCATCAGCGATGATATGTATGCAAGTGTAAGACCATGTCTA
GGACATGGCATCGGCACCAATATGCATGCCA
Found at i:102081709 original size:48 final size:49
Alignment explanation
Indices: 102081506--102081709 Score: 231
Period size: 48 Copynumber: 4.2 Consensus size: 49
102081496 GTAAGATCTC
*
102081506 GTGTAAGACCATGTC-AGGGACATGGCATCGGCGTTGATATGT-ATGCCA
1 GTGTAAGACCATGTCTA-GGACATGGCATCGGCATTGATATGTGATGCCA
* * *
102081554 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATG-CATGCCA
1 GTGTAAGACCATGTCTAGGACATGGCATCGGCATTGATATGTGATGCCA
* * *
102081602 GTGTAAGACCATGTCTGGGACATGGCATCAGCGA-TGATATGTG-TGCAA
1 GTGTAAGACCATGTCTAGGACATGGCATCGGC-ATTGATATGTGATGCCA
* *** *
102081650 GTGTAATACCATGTCTAGGACATGGCATCGGCACCAATATGTGAT-CCC
1 GTGTAAGACCATGTCTAGGACATGGCATCGGCATTGATATGTGATGCCA
*
102081698 GTATAAGACCAT
1 GTGTAAGACCAT
102081710 ATCAGGGATA
Statistics
Matches: 136, Mismatches: 14, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
47 1 0.01
48 134 0.99
49 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (49 bp):
GTGTAAGACCATGTCTAGGACATGGCATCGGCATTGATATGTGATGCCA
Found at i:102081723 original size:48 final size:48
Alignment explanation
Indices: 102081671--102081776 Score: 122
Period size: 48 Copynumber: 2.2 Consensus size: 48
102081661 TGTCTAGGAC
* *
102081671 ATGGCATCGGCACCAATATGTGATCCCGTATAAGACCATATCAGGGAT
1 ATGGCATCGACACCAATAAGTGATCCCGTATAAGACCATATCAGGGAT
* * * * ** *
102081719 ATGGCTTCGACATCATTAAGTTATTTCGTATAAGACCATATCTGGGAT
1 ATGGCATCGACACCAATAAGTGATCCCGTATAAGACCATATCAGGGAT
*
102081767 ATGGCGTCGA
1 ATGGCATCGA
102081777 TATGTAGATC
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (48 bp):
ATGGCATCGACACCAATAAGTGATCCCGTATAAGACCATATCAGGGAT
Found at i:102084896 original size:42 final size:42
Alignment explanation
Indices: 102084834--102084914 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
102084824 GTCTTACGAC
* *
102084834 ATACGAGCAGACGTGCATGTGTGTGAACCTTCTAGTTTTCTT
1 ATACGAGCAAACGTGCATGTGTATGAACCTTCTAGTTTTCTT
* * *
102084876 ATACGAGCAAATGTGTATGTGTATGGACCTTCTAGTTTT
1 ATACGAGCAAACGTGCATGTGTATGAACCTTCTAGTTTT
102084915 TTTACCATCC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.23, C:0.16, G:0.23, T:0.37
Consensus pattern (42 bp):
ATACGAGCAAACGTGCATGTGTATGAACCTTCTAGTTTTCTT
Found at i:102088226 original size:69 final size:69
Alignment explanation
Indices: 102088113--102088272 Score: 214
Period size: 69 Copynumber: 2.3 Consensus size: 69
102088103 TCAACTTTAC
*
102088113 CCTTCTCCCTCTTTTTCGTTCTCACGTCTGAAGCAACTTCTTTTTTTTCA-TTCTTCCCATTTCC
1 CCTTCT-CCTCTTTTTCATTCTCACGTCTGAAGCAAC-TCTTTTTTTTCATTTCTTCCCATTTCC
102088177 TTCCAA
64 TTCCAA
* * * *
102088183 CCTTCTCCTCTTTTTCATTGTCACGTCTGAATCATCTTTTTTTTTTCATTCTTCTTCCCATTTCC
1 CCTTCTCCTCTTTTTCATTCTCACGTCTGAAGCAACTCTTTTTTTTCA-T-TTCTTCCCATTTCC
102088248 TTCCAA
64 TTCCAA
*
102088254 CCATCTCTCTCTTTTTCAT
1 CCTTCTC-CTCTTTTTCAT
102088273 GCTTATATCC
Statistics
Matches: 80, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
68 11 0.14
69 26 0.32
70 6 0.08
71 26 0.32
72 11 0.14
ACGTcount: A:0.12, C:0.33, G:0.04, T:0.50
Consensus pattern (69 bp):
CCTTCTCCTCTTTTTCATTCTCACGTCTGAAGCAACTCTTTTTTTTCATTTCTTCCCATTTCCTT
CCAA
Found at i:102092891 original size:17 final size:17
Alignment explanation
Indices: 102092871--102092903 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
102092861 ATTAAGAATG
102092871 TTATTAAATTAAATTTT
1 TTATTAAATTAAATTTT
*
102092888 TTATTAAATTATATTT
1 TTATTAAATTAAATTT
102092904 AATAATAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTATTAAATTAAATTTT
Found at i:102093169 original size:16 final size:16
Alignment explanation
Indices: 102093141--102093195 Score: 83
Period size: 16 Copynumber: 3.4 Consensus size: 16
102093131 TGAATTACTG
*
102093141 ATTACAGCTCTATTCA
1 ATTACAGCCCTATTCA
*
102093157 ATTCCAGCCCTATTCA
1 ATTACAGCCCTATTCA
*
102093173 ATTACAGCCCTATTCC
1 ATTACAGCCCTATTCA
102093189 ATTACAG
1 ATTACAG
102093196 TGAACCAAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.29, C:0.31, G:0.07, T:0.33
Consensus pattern (16 bp):
ATTACAGCCCTATTCA
Found at i:102093926 original size:16 final size:18
Alignment explanation
Indices: 102093905--102093939 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
102093895 TGATTTAAGG
102093905 ACGAAAAA-TAAA-GAAA
1 ACGAAAAATTAAATGAAA
102093921 ACGAAAAATTAAATGAAA
1 ACGAAAAATTAAATGAAA
102093939 A
1 A
102093940 GTTAAAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 4 0.24
18 5 0.29
ACGTcount: A:0.71, C:0.06, G:0.11, T:0.11
Consensus pattern (18 bp):
ACGAAAAATTAAATGAAA
Found at i:102111448 original size:3 final size:3
Alignment explanation
Indices: 102111440--102111473 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
102111430 TAAATTATTT
102111440 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
102111474 AATTATAGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:102111726 original size:24 final size:24
Alignment explanation
Indices: 102111699--102111749 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
102111689 GACACTTGTA
* *
102111699 TCGTTTTGGGTTGCTTGATGAACC
1 TCGTTTTGGGTCGCCTGATGAACC
102111723 TCGTTTTGGGTCGCCTGATGAACC
1 TCGTTTTGGGTCGCCTGATGAACC
102111747 TCG
1 TCG
102111750 CAGCCCACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.12, C:0.22, G:0.29, T:0.37
Consensus pattern (24 bp):
TCGTTTTGGGTCGCCTGATGAACC
Found at i:102112172 original size:28 final size:28
Alignment explanation
Indices: 102112140--102112194 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
102112130 CCTTAAAAAA
* *
102112140 AAAAGAAAACGAAGAAAATATAATTTTC
1 AAAAGAAAAAGAAGAAAATAAAATTTTC
* *
102112168 AAAAGAAAAATAATAAAATAAAATTTT
1 AAAAGAAAAAGAAGAAAATAAAATTTT
102112195 TCAGTTAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.65, C:0.04, G:0.07, T:0.24
Consensus pattern (28 bp):
AAAAGAAAAAGAAGAAAATAAAATTTTC
Found at i:102113561 original size:20 final size:20
Alignment explanation
Indices: 102113538--102113578 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
102113528 GCCAAAGCAT
*
102113538 ATAGCACTACGGCAAAATAG
1 ATAGCACTACAGCAAAATAG
102113558 ATAGCACTACAGCAAAATAG
1 ATAGCACTACAGCAAAATAG
102113578 A
1 A
102113579 CTTTTAGCGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.49, C:0.20, G:0.17, T:0.15
Consensus pattern (20 bp):
ATAGCACTACAGCAAAATAG
Found at i:102114551 original size:14 final size:14
Alignment explanation
Indices: 102114496--102114579 Score: 62
Period size: 15 Copynumber: 5.9 Consensus size: 14
102114486 ACTATTTAAA
* *
102114496 GGTTTATGGATTAT
1 GGTTTAGGGGTTAT
**
102114510 GGGTTTAGGAATTAT
1 -GGTTTAGGGGTTAT
* *
102114525 -GTTTATGGCTTAT
1 GGTTTAGGGGTTAT
*
102114538 GGTTTAAGGGTTAT
1 GGTTTAGGGGTTAT
* *
102114552 GGGTTAGGGGTTAGG
1 GGTTTAGGGGTTA-T
102114567 GGTTTAGGGGTTA
1 GGTTTAGGGGTTA
102114580 GGGGTTAATG
Statistics
Matches: 56, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
13 10 0.18
14 22 0.39
15 24 0.43
ACGTcount: A:0.19, C:0.01, G:0.38, T:0.42
Consensus pattern (14 bp):
GGTTTAGGGGTTAT
Found at i:102114555 original size:7 final size:7
Alignment explanation
Indices: 102114545--102114615 Score: 70
Period size: 7 Copynumber: 9.9 Consensus size: 7
102114535 TATGGTTTAA
*
102114545 GGGTTAT
1 GGGTTAG
102114552 GGGTTAG
1 GGGTTAG
102114559 GGGTTAG
1 GGGTTAG
102114566 GGGTTTAG
1 GGG-TTAG
102114574 GGGTTAG
1 GGGTTAG
*
102114581 GGGTTAAT
1 GGGTT-AG
*
102114589 GGTTTAG
1 GGGTTAG
* *
102114596 CGGTTAA
1 GGGTTAG
*
102114603 GGCTTAG
1 GGGTTAG
102114610 GGGTTA
1 GGGTTA
102114616 TTATTTTATG
Statistics
Matches: 51, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
7 39 0.76
8 12 0.24
ACGTcount: A:0.17, C:0.03, G:0.46, T:0.34
Consensus pattern (7 bp):
GGGTTAG
Found at i:102114573 original size:15 final size:15
Alignment explanation
Indices: 102114538--102114585 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
102114528 TATGGCTTAT
* *
102114538 GGTTTAAGGGTTATG
1 GGTTTAGGGGTTAGG
102114553 GG-TTAGGGGTTAGG
1 GGTTTAGGGGTTAGG
102114567 GGTTTAGGGGTTAGG
1 GGTTTAGGGGTTAGG
102114582 GGTT
1 GGTT
102114586 AATGGTTTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 12 0.40
15 18 0.60
ACGTcount: A:0.15, C:0.00, G:0.50, T:0.35
Consensus pattern (15 bp):
GGTTTAGGGGTTAGG
Found at i:102114577 original size:22 final size:22
Alignment explanation
Indices: 102114552--102114614 Score: 81
Period size: 22 Copynumber: 2.9 Consensus size: 22
102114542 TAAGGGTTAT
102114552 GGGTTAGGGGTTAGGGGTTTAG
1 GGGTTAGGGGTTAGGGGTTTAG
**
102114574 GGGTTAGGGGTTAATGGTTTAG
1 GGGTTAGGGGTTAGGGGTTTAG
* * *
102114596 CGGTTAAGGCTTAGGGGTT
1 GGGTTAGGGGTTAGGGGTT
102114615 ATTATTTTAT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.16, C:0.03, G:0.48, T:0.33
Consensus pattern (22 bp):
GGGTTAGGGGTTAGGGGTTTAG
Found at i:102114592 original size:29 final size:30
Alignment explanation
Indices: 102114538--102114615 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 30
102114528 TATGGCTTAT
* * *
102114538 GGTTTAAGGGTTATGGGTT-AGGGGTTAGG
1 GGTTTAAGGGTTAGGGGTTAAGGGTTTAGC
* *
102114567 GGTTTAGGGGTTAGGGGTTAATGGTTTAGC
1 GGTTTAAGGGTTAGGGGTTAAGGGTTTAGC
*
102114597 GG-TTAAGGCTTAGGGGTTA
1 GGTTTAAGGGTTAGGGGTTA
102114616 TTATTTTATG
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
29 32 0.78
30 9 0.22
ACGTcount: A:0.18, C:0.03, G:0.45, T:0.35
Consensus pattern (30 bp):
GGTTTAAGGGTTAGGGGTTAAGGGTTTAGC
Found at i:102114595 original size:15 final size:14
Alignment explanation
Indices: 102114531--102114615 Score: 62
Period size: 14 Copynumber: 5.9 Consensus size: 14
102114521 TTATGTTTAT
* *
102114531 GGCTTATGGTTTAA
1 GGCTTAGGGGTTAA
* * *
102114545 GGGTTATGGGTTAG
1 GGCTTAGGGGTTAA
* *
102114559 GGGTTAGGGGTTTAG
1 GGCTTAGGGG-TTAA
*
102114574 GGGTTAGGGGTTAA
1 GGCTTAGGGGTTAA
* *
102114588 TGGTTTAGCGGTTAA
1 -GGCTTAGGGGTTAA
102114603 GGCTTAGGGGTTA
1 GGCTTAGGGGTTA
102114616 TTATTTTATG
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
14 34 0.57
15 26 0.43
ACGTcount: A:0.18, C:0.04, G:0.44, T:0.35
Consensus pattern (14 bp):
GGCTTAGGGGTTAA
Found at i:102114831 original size:21 final size:21
Alignment explanation
Indices: 102114807--102114862 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
102114797 ATTGTTTGTG
* * *
102114807 GTTTATGGTTTAGGGGATATA
1 GTTTAGGGTTTAAGAGATATA
102114828 GTTTAGGGTTTAAGAGATATA
1 GTTTAGGGTTTAAGAGATATA
*
102114849 GTTTAGAGTTTAAG
1 GTTTAGGGTTTAAG
102114863 GTTATGGTGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.29, C:0.00, G:0.30, T:0.41
Consensus pattern (21 bp):
GTTTAGGGTTTAAGAGATATA
Found at i:102114831 original size:28 final size:28
Alignment explanation
Indices: 102114774--102114841 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 28
102114764 ATTCATACAT
* *
102114774 TTTGTGG-TTAAGGCTTAGGGGTTATTG
1 TTTGTGGTTTAAGGCTTAGGGGATATAG
* *
102114801 TTTGTGGTTTATGGTTTAGGGGATATAG
1 TTTGTGGTTTAAGGCTTAGGGGATATAG
102114829 TTTAG-GGTTTAAG
1 TTT-GTGGTTTAAG
102114842 AGATATAGTT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
27 7 0.21
28 26 0.76
29 1 0.03
ACGTcount: A:0.18, C:0.01, G:0.35, T:0.46
Consensus pattern (28 bp):
TTTGTGGTTTAAGGCTTAGGGGATATAG
Found at i:102117177 original size:14 final size:14
Alignment explanation
Indices: 102117158--102117202 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
102117148 TAATGTATAT
102117158 ATATATCAATATGC
1 ATATATCAATATGC
102117172 ATATAT--ATA--C
1 ATATATCAATATGC
102117182 ATATATCAATATGC
1 ATATATCAATATGC
102117196 ATATATC
1 ATATATC
102117203 TTGGGTTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
10 7 0.26
12 6 0.22
14 14 0.52
ACGTcount: A:0.44, C:0.13, G:0.04, T:0.38
Consensus pattern (14 bp):
ATATATCAATATGC
Found at i:102117185 original size:24 final size:24
Alignment explanation
Indices: 102117153--102117201 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
102117143 GATTGTAATG
*
102117153 TATATATATATCAATATGCATATA
1 TATACATATATCAATATGCATATA
102117177 TATACATATATCAATATGCATATA
1 TATACATATATCAATATGCATATA
102117201 T
1 T
102117202 CTTGGGTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.45, C:0.10, G:0.04, T:0.41
Consensus pattern (24 bp):
TATACATATATCAATATGCATATA
Found at i:102117355 original size:25 final size:25
Alignment explanation
Indices: 102117312--102117359 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
102117302 CTCCGCATCG
*
102117312 TCATTGGCAGCCTTATGCTACATTT
1 TCATTGGCAGCCCTATGCTACATTT
* *
102117337 TCATTGGCATCCCTCTGCTACAT
1 TCATTGGCAGCCCTATGCTACAT
102117360 CTCCGTCAGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.19, C:0.29, G:0.15, T:0.38
Consensus pattern (25 bp):
TCATTGGCAGCCCTATGCTACATTT
Found at i:102117881 original size:2 final size:2
Alignment explanation
Indices: 102117876--102117904 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
102117866 ATATATATAT
102117876 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
102117905 ACAAACATGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:102129026 original size:31 final size:29
Alignment explanation
Indices: 102128923--102129005 Score: 157
Period size: 29 Copynumber: 2.9 Consensus size: 29
102128913 GTGACGAGAT
102128923 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
102128952 TGGCACTAAGTGTGTATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
102128981 TGGCACTAAGTGTGCATGCTGGAAA
1 TGGCACTAAGTGTGCATGCTGGAAA
102129006 AAAATACGGC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.30, C:0.13, G:0.29, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:102129046 original size:60 final size:58
Alignment explanation
Indices: 102128919--102129055 Score: 143
Period size: 60 Copynumber: 2.3 Consensus size: 58
102128909 TACGGTGACG
* * * *
102128919 AGAT-TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGTATGCTGGAA
1 AGATATGGCACTAAGTGTGCATGCTGGAAAAATACGGCACTAAGTGTGGATGCTCGAA
* **
102128976 ATATATGGCACTAAGTGTGCATGCTGGAAAAAAATACGGCACTGGGTGTGCGA-GCTCGAA
1 AGATATGGCACTAAGTGTGCATGCTGG--AAAAATACGGCACTAAGTGTG-GATGCTCGAA
* * *
102129036 GGGTATGGCACTATGTGTGC
1 AGATATGGCACTAAGTGTGC
102129056 GGGCTTAAAT
Statistics
Matches: 65, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
57 3 0.05
58 22 0.34
60 39 0.60
61 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (58 bp):
AGATATGGCACTAAGTGTGCATGCTGGAAAAATACGGCACTAAGTGTGGATGCTCGAA
Found at i:102138965 original size:308 final size:308
Alignment explanation
Indices: 102138393--102138966 Score: 889
Period size: 308 Copynumber: 1.9 Consensus size: 308
102138383 AACCATTTGC
* * * *
102138393 AAAAACAGATGGGATTAGCACTGAAATAATTCATCATATACTTCATGCCTTTCAATAGTTTAATC
1 AAAAAAAGATGGGATTAGCACTGAAATAATTCATCATATACTTCATGCCCTTAAATAATTTAATC
*
102138458 AAAATCATTCATATATACATTTCATCGAATCAATACCAAAAACAAACATGCTTGTATGATCATTC
66 AAAATCATTCATATATACATGTCATCGAATCAATACCAAAAACAAACATGCTTGTATGATCATTC
* *
102138523 TCTAGCATAAATATTTTAATGGATAAACACATGTGTTAACAAATCATTTAAATATCAATCACAAA
131 TCTAGCATAAATATTTTAATGGATAAACACATGTATTAACAAATCATTTAAAGATCAATCACAAA
* * * * *
102138588 TTTTAATAGCCCAATGAACTATAGTAAGATAACTTGGCTACTCAGGTAACTAGATCACAATAGAG
196 TTTTAATAGCCCAATGAACTATAGTAACATAACTCGGATACTCAGGTAACTACATCACAATAAAG
102138653 AGCATCGAAACACTAAACTATAGTAACCTGAAAAACTATTTTGAAAAA
261 AGCATCGAAACACTAAACTATAGTAACCTGAAAAACTATTTTGAAAAA
* *
102138701 AAAAAAAGATTGGATTAGCACT-AAATAAATTCATCATATACTTCATGCCCTTAAATAATTTCAT
1 AAAAAAAGATGGGATTAGCACTGAAAT-AATTCATCATATACTTCATGCCCTTAAATAATTTAAT
* * * *
102138765 TAAAATCATTCATATATACATGTCATCGAATCAATACCAAGAAGAAACATTCTTGTATGATCATT
65 CAAAATCATTCATATATACATGTCATCGAATCAATACCAAAAACAAACATGCTTGTATGATCATT
* * * *
102138830 CTCTAGCATAGATCTTTTAATGGATAAACTCATGTATTAACAAATCATTTATAGATCAATCACAA
130 CTCTAGCATAAATATTTTAATGGATAAACACATGTATTAACAAATCATTTAAAGATCAATCACAA
* * ** *
102138895 ATTTTAATAGCCTAGTGAACTATAGTAACATAACTCGGATACTTGGGTAACTACATCACACTAAA
195 ATTTTAATAGCCCAATGAACTATAGTAACATAACTCGGATACTCAGGTAACTACATCACAATAAA
102138960 GAGCATC
260 GAGCATC
102138967 AAAATGCTAA
Statistics
Matches: 238, Mismatches: 27, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
307 4 0.02
308 234 0.98
ACGTcount: A:0.42, C:0.17, G:0.11, T:0.30
Consensus pattern (308 bp):
AAAAAAAGATGGGATTAGCACTGAAATAATTCATCATATACTTCATGCCCTTAAATAATTTAATC
AAAATCATTCATATATACATGTCATCGAATCAATACCAAAAACAAACATGCTTGTATGATCATTC
TCTAGCATAAATATTTTAATGGATAAACACATGTATTAACAAATCATTTAAAGATCAATCACAAA
TTTTAATAGCCCAATGAACTATAGTAACATAACTCGGATACTCAGGTAACTACATCACAATAAAG
AGCATCGAAACACTAAACTATAGTAACCTGAAAAACTATTTTGAAAAA
Found at i:102147651 original size:40 final size:40
Alignment explanation
Indices: 102147604--102147807 Score: 315
Period size: 40 Copynumber: 5.1 Consensus size: 40
102147594 CGGGCTTTAA
**
102147604 CCGGATATAGCCACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
102147644 CCGGATATAGT-ACTTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
*
102147684 CCGGATATAGTAACTCGCACAAATGCCCTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
102147724 CCGGA-ATTAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
102147764 CCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
102147804 CCGG
1 CCGG
102147808 TTATCATCCG
Statistics
Matches: 156, Mismatches: 5, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
39 3 0.02
40 151 0.97
41 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:102151338 original size:26 final size:26
Alignment explanation
Indices: 102151299--102151365 Score: 84
Period size: 26 Copynumber: 2.6 Consensus size: 26
102151289 AGTCATATCA
* *
102151299 GGAAGCTCACGAAGAGCC-TTTAATCG
1 GGAAGCTCATGAAGAGCCATATAAT-G
102151325 GGAAGCTCATGAAGAGCCATATAATG
1 GGAAGCTCATGAAGAGCCATATAATG
*
102151351 GGACGCTCAT-AAGAG
1 GGAAGCTCATGAAGAG
102151366 TTGCAGTGTG
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
25 5 0.14
26 27 0.73
27 5 0.14
ACGTcount: A:0.34, C:0.19, G:0.28, T:0.18
Consensus pattern (26 bp):
GGAAGCTCATGAAGAGCCATATAATG
Found at i:102155630 original size:27 final size:27
Alignment explanation
Indices: 102155598--102155652 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
102155588 CCAACACATA
102155598 GGCAAGGTAAGTATCATACTCTTTTCT
1 GGCAAGGTAAGTATCATACTCTTTTCT
102155625 GGCAAGGTAAGTATCATACTCTTTTCT
1 GGCAAGGTAAGTATCATACTCTTTTCT
102155652 G
1 G
102155653 ACATATTTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.36
Consensus pattern (27 bp):
GGCAAGGTAAGTATCATACTCTTTTCT
Found at i:102175035 original size:25 final size:26
Alignment explanation
Indices: 102175005--102175147 Score: 79
Period size: 24 Copynumber: 5.8 Consensus size: 26
102174995 GCCCTCTTTC
*
102175005 GAGCCATATAACT-GGAAGCTCATAT
1 GAGCCATATAACTAGGAAGCTCATAA
* * * **
102175030 GAGCCATGTAA-TAAGAAGCTTATCC
1 GAGCCATATAACTAGGAAGCTCATAA
* **
102175055 GGGCTGTATAA-TAGGAAGCTCATAA
1 GAGCCATATAACTAGGAAGCTCATAA
* *
102175080 GAG-CA-ATAATTAGGAAGCTCATAC
1 GAGCCATATAACTAGGAAGCTCATAA
* * **
102175104 GAGCCA-ATAAC-GGGTAGCTCCGAA
1 GAGCCATATAACTAGGAAGCTCATAA
*
102175128 GAGCCAT-TAAC-GGGAAGCTC
1 GAGCCATATAACTAGGAAGCTC
102175148 TGGATAGTCA
Statistics
Matches: 90, Mismatches: 24, Indels: 9
0.73 0.20 0.07
Matches are distributed among these distances:
23 4 0.04
24 43 0.48
25 43 0.48
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.20
Consensus pattern (26 bp):
GAGCCATATAACTAGGAAGCTCATAA
Found at i:102177266 original size:19 final size:18
Alignment explanation
Indices: 102177196--102177281 Score: 63
Period size: 19 Copynumber: 4.7 Consensus size: 18
102177186 TTTTTCCATA
102177196 AAAATTATAAAAA-TGT-T
1 AAAATTATAAAAACT-TAT
*
102177213 AAATATTA-AAAAA-ATACT
1 AAA-ATTATAAAAACTTA-T
*
102177231 AAAATTAATATAAACTTATT
1 AAAATT-ATAAAAACTTA-T
*
102177251 GAAATTATAAAAACTTAT
1 AAAATTATAAAAACTTAT
102177269 AAATATTATAAAA
1 AAA-ATTATAAAA
102177282 TATAATAAGT
Statistics
Matches: 55, Mismatches: 7, Indels: 12
0.74 0.09 0.16
Matches are distributed among these distances:
16 1 0.02
17 11 0.20
18 12 0.22
19 23 0.42
20 8 0.15
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.34
Consensus pattern (18 bp):
AAAATTATAAAAACTTAT
Found at i:102177270 original size:10 final size:9
Alignment explanation
Indices: 102177193--102177411 Score: 96
Period size: 9 Copynumber: 23.8 Consensus size: 9
102177183 TATTTTTTCC
102177193 ATAAAAATT
1 ATAAAAATT
102177202 ATAAAAATGT
1 ATAAAAAT-T
*
102177212 -TAAATATT
1 ATAAAAATT
*
102177220 A-AAAAAAT
1 ATAAAAATT
102177228 ACT-AAAATT
1 A-TAAAAATT
*
102177237 AATATAAACTT
1 -ATA-AAAATT
**
102177248 ATTGAAATT
1 ATAAAAATT
102177257 ATAAAAACTT
1 ATAAAAA-TT
*
102177267 ATAAATATT
1 ATAAAAATT
102177276 AT-AAAA-T
1 ATAAAAATT
*
102177283 ATAATAAGTT
1 ATAA-AAATT
102177293 A-AAAAATAT
1 ATAAAAAT-T
* *
102177302 ATATAAATA
1 ATAAAAATT
102177311 ATAAAAATT
1 ATAAAAATT
*
102177320 ATTTAAAA-T
1 A-TAAAAATT
102177329 A-AAAAATTGT
1 ATAAAAA-T-T
*
102177339 ATTAAAATT
1 ATAAAAATT
* *
102177348 CTTAAAAATA
1 -ATAAAAATT
102177358 ATAAAAA-T
1 ATAAAAATT
*
102177366 ATTAAAATT
1 ATAAAAATT
102177375 GATATAAAATT
1 -ATA-AAAATT
*
102177386 ATAAAATTT
1 ATAAAAATT
* *
102177395 AAAAAAAATC
1 -ATAAAAATT
102177405 ATAAAAA
1 ATAAAAA
102177412 CTTGAACTAG
Statistics
Matches: 154, Mismatches: 33, Indels: 46
0.66 0.14 0.20
Matches are distributed among these distances:
7 7 0.05
8 20 0.13
9 68 0.44
10 44 0.29
11 15 0.10
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (9 bp):
ATAAAAATT
Found at i:102177328 original size:19 final size:20
Alignment explanation
Indices: 102177266--102177334 Score: 58
Period size: 19 Copynumber: 3.7 Consensus size: 20
102177256 TATAAAAACT
* *
102177266 TATAAATATTATAAAATATA
1 TATAAATAATAAAAAATATA
*
102177286 -ATAAGT--TAAAAAATATA
1 TATAAATAATAAAAAATATA
* *
102177303 TATAAATAATAAAAATTATT
1 TATAAATAATAAAAAATATA
102177323 TA-AAATAA-AAAA
1 TATAAATAATAAAA
102177335 TTGTATTAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
17 10 0.24
18 9 0.22
19 11 0.27
20 11 0.27
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.33
Consensus pattern (20 bp):
TATAAATAATAAAAAATATA
Found at i:102177335 original size:17 final size:18
Alignment explanation
Indices: 102177292--102177346 Score: 60
Period size: 17 Copynumber: 3.1 Consensus size: 18
102177282 TATAATAAGT
*
102177292 TAAAAAATATATATAAATAA
1 TAAAAAAT-TATATTAA-AA
102177312 T-AAAAATTAT-TTAAAA
1 TAAAAAATTATATTAAAA
*
102177328 TAAAAAATTGTATTAAAA
1 TAAAAAATTATATTAAAA
102177346 T
1 T
102177347 TCTTAAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
16 3 0.10
17 11 0.35
18 10 0.32
19 6 0.19
20 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.35
Consensus pattern (18 bp):
TAAAAAATTATATTAAAA
Found at i:102177341 original size:19 final size:18
Alignment explanation
Indices: 102177292--102177391 Score: 51
Period size: 19 Copynumber: 5.3 Consensus size: 18
102177282 TATAATAAGT
*
102177292 TAAAAAATATATATAAATAA
1 TAAAAATTAT-TA-AAATAA
102177312 TAAAAATTATTTAAAATAA
1 TAAAAATTA-TTAAAATAA
* **
102177331 -AAAATTGTATTAAAATTCT
1 TAAAAAT-TATTAAAA-TAA
* *
102177350 TAAAAATAATAAAAAT-A
1 TAAAAATTATTAAAATAA
* *
102177367 TTAAAATTGATATAAAATTA
1 TAAAAATT-AT-TAAAATAA
102177387 TAAAA
1 TAAAA
102177392 TTTAAAAAAA
Statistics
Matches: 61, Mismatches: 12, Indels: 14
0.70 0.14 0.16
Matches are distributed among these distances:
17 6 0.10
18 14 0.23
19 20 0.33
20 20 0.33
21 1 0.02
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (18 bp):
TAAAAATTATTAAAATAA
Found at i:102177699 original size:16 final size:15
Alignment explanation
Indices: 102177660--102177699 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
102177650 TAGTTCAATT
102177660 AAATAAAACATTTAA
1 AAATAAAACATTTAA
*
102177675 AATTAAAAACATTTAAA
1 AAAT-AAAACATTT-AA
102177692 AAATAAAA
1 AAATAAAA
102177700 AAAATGATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 3 0.14
16 13 0.62
17 5 0.24
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (15 bp):
AAATAAAACATTTAA
Found at i:102177870 original size:10 final size:10
Alignment explanation
Indices: 102177827--102177876 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
102177817 TTTATGATTC
102177827 TTTTTTATAA
1 TTTTTTATAA
*
102177837 TTTTATATCAA
1 TTTTTTAT-AA
*
102177848 -TTTTAAT-A
1 TTTTTTATAA
*
102177856 CTTTTTATAA
1 TTTTTTATAA
102177866 TTTTTTATAA
1 TTTTTTATAA
102177876 T
1 T
102177877 GCTTATGATT
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
8 1 0.03
9 6 0.19
10 23 0.72
11 2 0.06
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (10 bp):
TTTTTTATAA
Found at i:102177889 original size:29 final size:29
Alignment explanation
Indices: 102177827--102177890 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 29
102177817 TTTATGATTC
*
102177827 TTTTTTATAATTTTATATCAATTTTAATA
1 TTTTTTATAATTTTATATCAATCTTAATA
* *
102177856 CTTTTTATAATTTTTTAT-AATGCTT-ATGA
1 TTTTTTATAATTTTATATCAAT-CTTAAT-A
102177885 TTTTTT
1 TTTTTT
102177891 GTATGATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
28 5 0.17
29 24 0.83
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.64
Consensus pattern (29 bp):
TTTTTTATAATTTTATATCAATCTTAATA
Found at i:102181902 original size:300 final size:299
Alignment explanation
Indices: 102181348--102181949 Score: 1006
Period size: 300 Copynumber: 2.0 Consensus size: 299
102181338 TTTTAGTCAG
* *
102181348 TTACGTTAATGTGTTGTAACATTTTAGTCACCAAGTCATTAATTATTGTTAACGGGTTAACGTTA
1 TTACGTTAATGTGTTGTAACATTTTAGTCACCAAGCCATTAATTATTGTTAACGAGTTAACGTTA
* * * *
102181413 AGCTGATGTGTCACATTAAATCATCATTTTAGACAAAAATTTTCGATTAAATTATACAATTGGAC
66 AGCTGACGTGGCACATTAAATCATCATTTCAGACAAAAATTTTAGATTAAATTATACAATTGGAC
102181478 CCCAGATTTTTTCGTTTTGAGCAATTTAATTATTTTTCTGTTATGTTCTTTTAACTTTCCTTTTC
131 CCCAGATTTTTTCGTTTTGAGCAATTTAATTATTTTTCTGTTATGTTCTTTTAACTTTCCTTTTC
102181543 CTTTTTCTTTATTTTCCATTCTCTTCTACTTCTCCCTCTGTTTTCCTCCCTTCTCCATCTCTTTT
196 CTTTTTCTTTATTTTCCATTCTCTTCTACTTCTCCCTCTGTTTTCCTCCCTTCTCCATCTCTTTT
* *
102181608 AATGTAATTTTTCTATATTTTCTATTTGTTAAAACTTTT
261 AACGTAATTTTTCTATATTTTCCATTTGTTAAAACTTTT
* *
102181647 TTACGTTAATGTGTTGTAACATTTTAGTCACCAAGCCGTTAATTTTTGTTAACGAGTTAACGTTA
1 TTACGTTAATGTGTTGTAACATTTTAGTCACCAAGCCATTAATTATTGTTAACGAGTTAACGTTA
* * * * *
102181712 AGTTGACGTGGCACATTAAATTATCATTTCAGACAAAAATTTTAGGTTAAATTATATAATTGGTC
66 AGCTGACGTGGCACATTAAATCATCATTTCAGACAAAAATTTTAGATTAAATTATACAATTGGAC
* *
102181777 CCCAGATTTTTTTTGTTTTGAGCAATTTAATTATTTTTCTTTTATGTTCTTTTAACTTTCCTTTT
131 CCCAGA-TTTTTTCGTTTTGAGCAATTTAATTATTTTTCTGTTATGTTCTTTTAACTTTCCTTTT
* *
102181842 TCTTTTTCTTTATTTTCCATTCTCTTCTACTTCTCCCTCTGTTTTCCTCTCTTCTCCATCTCTTT
195 CCTTTTTCTTTATTTTCCATTCTCTTCTACTTCTCCCTCTGTTTTCCTCCCTTCTCCATCTCTTT
* *
102181907 TAACGTAATTTTTTTATGTTTTCCATTTGTTAAAACTTTT
260 TAACGTAATTTTTCTATATTTTCCATTTGTTAAAACTTTT
102181947 TTA
1 TTA
102181950 TGTTTATGAA
Statistics
Matches: 281, Mismatches: 21, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
299 123 0.44
300 158 0.56
ACGTcount: A:0.23, C:0.17, G:0.10, T:0.50
Consensus pattern (299 bp):
TTACGTTAATGTGTTGTAACATTTTAGTCACCAAGCCATTAATTATTGTTAACGAGTTAACGTTA
AGCTGACGTGGCACATTAAATCATCATTTCAGACAAAAATTTTAGATTAAATTATACAATTGGAC
CCCAGATTTTTTCGTTTTGAGCAATTTAATTATTTTTCTGTTATGTTCTTTTAACTTTCCTTTTC
CTTTTTCTTTATTTTCCATTCTCTTCTACTTCTCCCTCTGTTTTCCTCCCTTCTCCATCTCTTTT
AACGTAATTTTTCTATATTTTCCATTTGTTAAAACTTTT
Found at i:102186288 original size:3 final size:3
Alignment explanation
Indices: 102186282--102186323 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
102186272 TTCATTGTCT
102186282 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
102186324 TGTATTTATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:102187416 original size:3 final size:3
Alignment explanation
Indices: 102187403--102187439 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
102187393 GCATTTTTAT
102187403 TTC TT- TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
102187440 TTATTGTTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TTC
Found at i:102187908 original size:21 final size:21
Alignment explanation
Indices: 102187883--102187923 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
102187873 TCCATCATGG
102187883 CTAGTTAACTG-GCCACATCAA
1 CTAGTTAA-TGAGCCACATCAA
102187904 CTAGTTAATGAGCCACATCA
1 CTAGTTAATGAGCCACATCA
102187924 CCTATCCCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (21 bp):
CTAGTTAATGAGCCACATCAA
Found at i:102188631 original size:11 final size:11
Alignment explanation
Indices: 102188603--102188644 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
102188593 TCTCTTTATA
102188603 TTCTCTTCAAA-
1 TTCTC-TCAAAT
102188614 TTCTCTCAAAT
1 TTCTCTCAAAT
*
102188625 TTCTCTCATAT
1 TTCTCTCAAAT
102188636 TT-TCTCAAA
1 TTCTCTCAAA
102188645 GCTCTCTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
10 11 0.39
11 17 0.61
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.48
Consensus pattern (11 bp):
TTCTCTCAAAT
Found at i:102188643 original size:21 final size:22
Alignment explanation
Indices: 102188603--102188644 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
102188593 TCTCTTTATA
102188603 TTCTCTTCAAATTCTCTCAAAT
1 TTCTCTTCAAATTCTCTCAAAT
* *
102188625 TTCTC-TCATATTTTCTCAAA
1 TTCTCTTCAAATTCTCTCAAA
102188645 GCTCTCTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.48
Consensus pattern (22 bp):
TTCTCTTCAAATTCTCTCAAAT
Found at i:102190437 original size:18 final size:18
Alignment explanation
Indices: 102190414--102190455 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
102190404 GCTAGGTGCA
*
102190414 TATCCTAGCCCTTATATG
1 TATCCTAACCCTTATATG
*
102190432 TATCCTAACTCTTATATG
1 TATCCTAACCCTTATATG
*
102190450 TTTCCT
1 TATCCT
102190456 TTTCCCAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.21, C:0.26, G:0.07, T:0.45
Consensus pattern (18 bp):
TATCCTAACCCTTATATG
Found at i:102190979 original size:9 final size:9
Alignment explanation
Indices: 102190965--102190995 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
102190955 TGAATAAGAC
102190965 AATATTTTT
1 AATATTTTT
102190974 AATATTTTT
1 AATATTTTT
*
102190983 TATATTTTT
1 AATATTTTT
102190992 AATA
1 AATA
102190996 AAATATAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (9 bp):
AATATTTTT
Found at i:102194242 original size:126 final size:126
Alignment explanation
Indices: 102194006--102194321 Score: 445
Period size: 126 Copynumber: 2.5 Consensus size: 126
102193996 CCAAATAGGA
* * * *
102194006 ACTACTGTAGCAAAAGAGCGTCCACATGTGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCAT
1 ACTACTGTAGCAAAAGAGCGTCCACGTGGGAGTTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
* * *
102194071 GCTTGAAGCATTTTGGACACCATTTGTTCAAAAACGTCTTCTCAAAATTATTTTTCCATAT
66 GCTTGAAGCATTTTGGACACCATTTGTTCAAAAACATCTTATCAAAATTATTTTTCCACAT
* * *
102194132 ACTACTATAGCAAAAGAGCGTCCACGTGGGAGTTTTTTTCAATAATTTTGCTAACAGTGCATCCT
1 ACTACTGTAGCAAAAGAGCGTCCACGTGGGAGTTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
* * * *
102194197 GCTTGAAGCGTTTTGGACACTATTTGTTCAGAAACATCTTATCAAAATTATTTTTTCACAT
66 GCTTGAAGCATTTTGGACACCATTTGTTCAAAAACATCTTATCAAAATTATTTTTCCACAT
** * * *
102194258 ACTACTGTAGCAAAAGAATGTCCACGTGGAAGCTTTTTTT-AGTTATTTTGCTGATAGTGCATCC
1 ACTACTGTAGCAAAAGAGCGTCCACGTGGGAG-TTTTTTTCAGTAATTTTGCTGACAGTGCATCC
102194322 ATAAACAAAA
Statistics
Matches: 167, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
126 160 0.96
127 7 0.04
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (126 bp):
ACTACTGTAGCAAAAGAGCGTCCACGTGGGAGTTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
GCTTGAAGCATTTTGGACACCATTTGTTCAAAAACATCTTATCAAAATTATTTTTCCACAT
Found at i:102198048 original size:13 final size:13
Alignment explanation
Indices: 102198027--102198097 Score: 63
Period size: 13 Copynumber: 5.5 Consensus size: 13
102198017 AAATTTTTCC
102198027 AAAGCACTTCTCA
1 AAAGCACTTCTCA
*
102198040 AAAGTACTTCTCA
1 AAAGCACTTCTCA
* * *
102198053 AATA-CATTTTTCC
1 AA-AGCACTTCTCA
* *
102198066 ACAGCACTTTTCA
1 AAAGCACTTCTCA
*
102198079 AAAGCACTTTTCA
1 AAAGCACTTCTCA
102198092 AAAGCA
1 AAAGCA
102198098 ATGAAGAACT
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
12 1 0.02
13 45 0.96
14 1 0.02
ACGTcount: A:0.38, C:0.25, G:0.07, T:0.30
Consensus pattern (13 bp):
AAAGCACTTCTCA
Found at i:102198066 original size:39 final size:39
Alignment explanation
Indices: 102198019--102198093 Score: 114
Period size: 39 Copynumber: 1.9 Consensus size: 39
102198009 AAACACTTAA
*
102198019 ATTTTTCCAAAGCACTTCTCAAAAGTACTTCTCAAATAC
1 ATTTTTCCAAAGCACTTCTCAAAAGCACTTCTCAAATAC
* * *
102198058 ATTTTTCCACAGCACTTTTCAAAAGCACTTTTCAAA
1 ATTTTTCCAAAGCACTTCTCAAAAGCACTTCTCAAA
102198094 AGCAATGAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.35
Consensus pattern (39 bp):
ATTTTTCCAAAGCACTTCTCAAAAGCACTTCTCAAATAC
Done.